[1] "ofn"        "-oTUCEC-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/UCEC-TP/15120652/UCEC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UCEC-TP/15165175/transformed.cor.cli.txt"

nPatients in clinical file=547, in cluster file=248, common to both=248
[1] 197 248
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
           161             87 
  PTEN MUTATED PTEN WILD-TYPE 
           161             87 
[1] "PIK3R1 MUTATION ANALYSIS"
[1] 3
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              83              165 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              83              165 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            69            179 
  TP53 MUTATED TP53 WILD-TYPE 
            69            179 
[1] "CTCF MUTATION ANALYSIS"
[1] 3
  CTCF MUTATED CTCF WILD-TYPE 
            44            204 
  CTCF MUTATED CTCF WILD-TYPE 
            44            204 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             39             209 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             39             209 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
            53            195 
  KRAS MUTATED KRAS WILD-TYPE 
            53            195 
[1] "ARHGAP35 MUTATION ANALYSIS"
[1] 3
  ARHGAP35 MUTATED ARHGAP35 WILD-TYPE 
                36                212 
  ARHGAP35 MUTATED ARHGAP35 WILD-TYPE 
                36                212 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
             132              116 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
             132              116 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              83              165 
  ARID1A MUTATED ARID1A WILD-TYPE 
              83              165 
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              74              174 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              74              174 
[1] "FGFR2 MUTATION ANALYSIS"
[1] 3
  FGFR2 MUTATED FGFR2 WILD-TYPE 
             31             217 
  FGFR2 MUTATED FGFR2 WILD-TYPE 
             31             217 
[1] "ZFHX3 MUTATION ANALYSIS"
[1] 3
  ZFHX3 MUTATED ZFHX3 WILD-TYPE 
             44             204 
  ZFHX3 MUTATED ZFHX3 WILD-TYPE 
             44             204 
[1] "TCP11L2 MUTATION ANALYSIS"
[1] 3
  TCP11L2 MUTATED TCP11L2 WILD-TYPE 
               14               234 
  TCP11L2 MUTATED TCP11L2 WILD-TYPE 
               14               234 
[1] "SPOP MUTATION ANALYSIS"
[1] 3
  SPOP MUTATED SPOP WILD-TYPE 
            21            227 
  SPOP MUTATED SPOP WILD-TYPE 
            21            227 
[1] "RBMX MUTATION ANALYSIS"
[1] 3
  RBMX MUTATED RBMX WILD-TYPE 
            13            235 
  RBMX MUTATED RBMX WILD-TYPE 
            13            235 
[1] "SOX17 MUTATION ANALYSIS"
[1] 3
  SOX17 MUTATED SOX17 WILD-TYPE 
              7             241 
  SOX17 MUTATED SOX17 WILD-TYPE 
              7             241 
[1] "NFE2L2 MUTATION ANALYSIS"
[1] 3
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              15              233 
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              15              233 
[1] "CCND1 MUTATION ANALYSIS"
[1] 3
  CCND1 MUTATED CCND1 WILD-TYPE 
             14             234 
  CCND1 MUTATED CCND1 WILD-TYPE 
             14             234 
[1] "GNPTAB MUTATION ANALYSIS"
[1] 3
  GNPTAB MUTATED GNPTAB WILD-TYPE 
              20              228 
  GNPTAB MUTATED GNPTAB WILD-TYPE 
              20              228 
[1] "ARID5B MUTATION ANALYSIS"
[1] 3
  ARID5B MUTATED ARID5B WILD-TYPE 
              29              219 
  ARID5B MUTATED ARID5B WILD-TYPE 
              29              219 
[1] "DNER MUTATION ANALYSIS"
[1] 3
  DNER MUTATED DNER WILD-TYPE 
            18            230 
  DNER MUTATED DNER WILD-TYPE 
            18            230 
[1] "EP300 MUTATION ANALYSIS"
[1] 3
  EP300 MUTATED EP300 WILD-TYPE 
             21             227 
  EP300 MUTATED EP300 WILD-TYPE 
             21             227 
[1] "MAX MUTATION ANALYSIS"
[1] 3
  MAX MUTATED MAX WILD-TYPE 
           11           237 
  MAX MUTATED MAX WILD-TYPE 
           11           237 
[1] "SGK1 MUTATION ANALYSIS"
[1] 3
  SGK1 MUTATED SGK1 WILD-TYPE 
            15            233 
  SGK1 MUTATED SGK1 WILD-TYPE 
            15            233 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
             9            239 
  NRAS MUTATED NRAS WILD-TYPE 
             9            239 
[1] "KLHL8 MUTATION ANALYSIS"
[1] 3
  KLHL8 MUTATED KLHL8 WILD-TYPE 
             12             236 
  KLHL8 MUTATED KLHL8 WILD-TYPE 
             12             236 
[1] "MORC4 MUTATION ANALYSIS"
[1] 3
  MORC4 MUTATED MORC4 WILD-TYPE 
             20             228 
  MORC4 MUTATED MORC4 WILD-TYPE 
             20             228 
[1] "ZNF781 MUTATION ANALYSIS"
[1] 3
  ZNF781 MUTATED ZNF781 WILD-TYPE 
              10              238 
  ZNF781 MUTATED ZNF781 WILD-TYPE 
              10              238 
[1] "MKI67 MUTATION ANALYSIS"
[1] 3
  MKI67 MUTATED MKI67 WILD-TYPE 
             29             219 
  MKI67 MUTATED MKI67 WILD-TYPE 
             29             219 
[1] "ING1 MUTATION ANALYSIS"
[1] 3
  ING1 MUTATED ING1 WILD-TYPE 
            13            235 
  ING1 MUTATED ING1 WILD-TYPE 
            13            235 
[1] "INTS7 MUTATION ANALYSIS"
[1] 3
  INTS7 MUTATED INTS7 WILD-TYPE 
              8             240 
  INTS7 MUTATED INTS7 WILD-TYPE 
              8             240 
[1] "CCDC6 MUTATION ANALYSIS"
[1] 3
  CCDC6 MUTATED CCDC6 WILD-TYPE 
              6             242 
  CCDC6 MUTATED CCDC6 WILD-TYPE 
              6             242 
[1] "EIF2S2 MUTATION ANALYSIS"
[1] 3
  EIF2S2 MUTATED EIF2S2 WILD-TYPE 
               9              239 
  EIF2S2 MUTATED EIF2S2 WILD-TYPE 
               9              239 
[1] "RBBP6 MUTATION ANALYSIS"
[1] 3
  RBBP6 MUTATED RBBP6 WILD-TYPE 
             22             226 
  RBBP6 MUTATED RBBP6 WILD-TYPE 
             22             226 
[1] "SOS1 MUTATION ANALYSIS"
[1] 3
  SOS1 MUTATED SOS1 WILD-TYPE 
            12            236 
  SOS1 MUTATED SOS1 WILD-TYPE 
            12            236 
[1] "NAT1 MUTATION ANALYSIS"
[1] 3
  NAT1 MUTATED NAT1 WILD-TYPE 
             7            241 
  NAT1 MUTATED NAT1 WILD-TYPE 
             7            241 
[1] "ADNP MUTATION ANALYSIS"
[1] 3
  ADNP MUTATED ADNP WILD-TYPE 
            14            234 
  ADNP MUTATED ADNP WILD-TYPE 
            14            234 
[1] "VPS11 MUTATION ANALYSIS"
[1] 3
  VPS11 MUTATED VPS11 WILD-TYPE 
             12             236 
  VPS11 MUTATED VPS11 WILD-TYPE 
             12             236 
[1] "L1TD1 MUTATION ANALYSIS"
[1] 3
  L1TD1 MUTATED L1TD1 WILD-TYPE 
             16             232 
  L1TD1 MUTATED L1TD1 WILD-TYPE 
             16             232 
[1] "MARK3 MUTATION ANALYSIS"
[1] 3
  MARK3 MUTATED MARK3 WILD-TYPE 
             11             237 
  MARK3 MUTATED MARK3 WILD-TYPE 
             11             237 
[1] "CTNND1 MUTATION ANALYSIS"
[1] 3
  CTNND1 MUTATED CTNND1 WILD-TYPE 
              19              229 
  CTNND1 MUTATED CTNND1 WILD-TYPE 
              19              229 
[1] "GFAP MUTATION ANALYSIS"
[1] 3
  GFAP MUTATED GFAP WILD-TYPE 
             9            239 
  GFAP MUTATED GFAP WILD-TYPE 
             9            239 
[1] "PPP2R1A MUTATION ANALYSIS"
[1] 3
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               27               221 
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               27               221 
[1] "C9ORF102 MUTATION ANALYSIS"
[1] 3
  C9ORF102 MUTATED C9ORF102 WILD-TYPE 
                16                232 
  C9ORF102 MUTATED C9ORF102 WILD-TYPE 
                16                232 
[1] "EIF4A2 MUTATION ANALYSIS"
[1] 3
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
               7              241 
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
               7              241 
[1] "ZNF471 MUTATION ANALYSIS"
[1] 3
  ZNF471 MUTATED ZNF471 WILD-TYPE 
              15              233 
  ZNF471 MUTATED ZNF471 WILD-TYPE 
              15              233 
[1] "CDK17 MUTATION ANALYSIS"
[1] 3
  CDK17 MUTATED CDK17 WILD-TYPE 
             14             234 
  CDK17 MUTATED CDK17 WILD-TYPE 
             14             234 
[1] "SIN3A MUTATION ANALYSIS"
[1] 3
  SIN3A MUTATED SIN3A WILD-TYPE 
             21             227 
  SIN3A MUTATED SIN3A WILD-TYPE 
             21             227 
[1] "ZNF485 MUTATION ANALYSIS"
[1] 3
  ZNF485 MUTATED ZNF485 WILD-TYPE 
               9              239 
  ZNF485 MUTATED ZNF485 WILD-TYPE 
               9              239 
[1] "RSBN1L MUTATION ANALYSIS"
[1] 3
  RSBN1L MUTATED RSBN1L WILD-TYPE 
              12              236 
  RSBN1L MUTATED RSBN1L WILD-TYPE 
              12              236 
[1] "CUX1 MUTATION ANALYSIS"
[1] 3
  CUX1 MUTATED CUX1 WILD-TYPE 
            23            225 
  CUX1 MUTATED CUX1 WILD-TYPE 
            23            225 
[1] "BCOR MUTATION ANALYSIS"
[1] 3
  BCOR MUTATED BCOR WILD-TYPE 
            30            218 
  BCOR MUTATED BCOR WILD-TYPE 
            30            218 
[1] "WDR45 MUTATION ANALYSIS"
[1] 3
  WDR45 MUTATED WDR45 WILD-TYPE 
             11             237 
  WDR45 MUTATED WDR45 WILD-TYPE 
             11             237 
[1] "CAB39L MUTATION ANALYSIS"
[1] 3
  CAB39L MUTATED CAB39L WILD-TYPE 
               8              240 
  CAB39L MUTATED CAB39L WILD-TYPE 
               8              240 
[1] "TAB3 MUTATION ANALYSIS"
[1] 3
  TAB3 MUTATED TAB3 WILD-TYPE 
            18            230 
  TAB3 MUTATED TAB3 WILD-TYPE 
            18            230 
[1] "OAZ3 MUTATION ANALYSIS"
[1] 3
  OAZ3 MUTATED OAZ3 WILD-TYPE 
             8            240 
  OAZ3 MUTATED OAZ3 WILD-TYPE 
             8            240 
[1] "AHCYL1 MUTATION ANALYSIS"
[1] 3
  AHCYL1 MUTATED AHCYL1 WILD-TYPE 
               6              242 
  AHCYL1 MUTATED AHCYL1 WILD-TYPE 
               6              242 
[1] "ATM MUTATION ANALYSIS"
[1] 3
  ATM MUTATED ATM WILD-TYPE 
           29           219 
  ATM MUTATED ATM WILD-TYPE 
           29           219 
[1] "MSH4 MUTATION ANALYSIS"
[1] 3
  MSH4 MUTATED MSH4 WILD-TYPE 
            15            233 
  MSH4 MUTATED MSH4 WILD-TYPE 
            15            233 
[1] "FAM65B MUTATION ANALYSIS"
[1] 3
  FAM65B MUTATED FAM65B WILD-TYPE 
              16              232 
  FAM65B MUTATED FAM65B WILD-TYPE 
              16              232 
[1] "FN1 MUTATION ANALYSIS"
[1] 3
  FN1 MUTATED FN1 WILD-TYPE 
           24           224 
  FN1 MUTATED FN1 WILD-TYPE 
           24           224 
[1] "JAKMIP2 MUTATION ANALYSIS"
[1] 3
  JAKMIP2 MUTATED JAKMIP2 WILD-TYPE 
               12               236 
  JAKMIP2 MUTATED JAKMIP2 WILD-TYPE 
               12               236 
[1] "WBP4 MUTATION ANALYSIS"
[1] 3
  WBP4 MUTATED WBP4 WILD-TYPE 
             8            240 
  WBP4 MUTATED WBP4 WILD-TYPE 
             8            240 
[1] "RASA1 MUTATION ANALYSIS"
[1] 3
  RASA1 MUTATED RASA1 WILD-TYPE 
             22             226 
  RASA1 MUTATED RASA1 WILD-TYPE 
             22             226 
[1] "ALPK2 MUTATION ANALYSIS"
[1] 3
  ALPK2 MUTATED ALPK2 WILD-TYPE 
             19             229 
  ALPK2 MUTATED ALPK2 WILD-TYPE 
             19             229 
[1] "POLE MUTATION ANALYSIS"
[1] 3
  POLE MUTATED POLE WILD-TYPE 
            27            221 
  POLE MUTATED POLE WILD-TYPE 
            27            221 
[1] "KIF20B MUTATION ANALYSIS"
[1] 3
  KIF20B MUTATED KIF20B WILD-TYPE 
              21              227 
  KIF20B MUTATED KIF20B WILD-TYPE 
              21              227 
[1] "C14ORF166B MUTATION ANALYSIS"
[1] 3
  C14ORF166B MUTATED C14ORF166B WILD-TYPE 
                  10                  238 
  C14ORF166B MUTATED C14ORF166B WILD-TYPE 
                  10                  238 
[1] "SLC26A8 MUTATION ANALYSIS"
[1] 3
  SLC26A8 MUTATED SLC26A8 WILD-TYPE 
               12               236 
  SLC26A8 MUTATED SLC26A8 WILD-TYPE 
               12               236 
[1] "ZNF334 MUTATION ANALYSIS"
[1] 3
  ZNF334 MUTATED ZNF334 WILD-TYPE 
              17              231 
  ZNF334 MUTATED ZNF334 WILD-TYPE 
              17              231 
[1] "RRAS2 MUTATION ANALYSIS"
[1] 3
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              4             244 
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              4             244 
[1] "PPM1N MUTATION ANALYSIS"
[1] 3
  PPM1N MUTATED PPM1N WILD-TYPE 
              7             241 
  PPM1N MUTATED PPM1N WILD-TYPE 
              7             241 
[1] "FCN1 MUTATION ANALYSIS"
[1] 3
  FCN1 MUTATED FCN1 WILD-TYPE 
             8            240 
  FCN1 MUTATED FCN1 WILD-TYPE 
             8            240 
[1] "TIAL1 MUTATION ANALYSIS"
[1] 3
  TIAL1 MUTATED TIAL1 WILD-TYPE 
             10             238 
  TIAL1 MUTATED TIAL1 WILD-TYPE 
             10             238 
[1] "PSMC4 MUTATION ANALYSIS"
[1] 3
  PSMC4 MUTATED PSMC4 WILD-TYPE 
             11             237 
  PSMC4 MUTATED PSMC4 WILD-TYPE 
             11             237 
[1] "MFAP5 MUTATION ANALYSIS"
[1] 3
  MFAP5 MUTATED MFAP5 WILD-TYPE 
              9             239 
  MFAP5 MUTATED MFAP5 WILD-TYPE 
              9             239 
[1] "RAB3GAP1 MUTATION ANALYSIS"
[1] 3
  RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE 
                16                232 
  RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE 
                16                232 
[1] "MSH6 MUTATION ANALYSIS"
[1] 3
  MSH6 MUTATED MSH6 WILD-TYPE 
            17            231 
  MSH6 MUTATED MSH6 WILD-TYPE 
            17            231 
[1] "BMP2K MUTATION ANALYSIS"
[1] 3
  BMP2K MUTATED BMP2K WILD-TYPE 
             13             235 
  BMP2K MUTATED BMP2K WILD-TYPE 
             13             235 
[1] "ZNF606 MUTATION ANALYSIS"
[1] 3
  ZNF606 MUTATED ZNF606 WILD-TYPE 
              16              232 
  ZNF606 MUTATED ZNF606 WILD-TYPE 
              16              232 
[1] "ZNF263 MUTATION ANALYSIS"
[1] 3
  ZNF263 MUTATED ZNF263 WILD-TYPE 
               7              241 
  ZNF263 MUTATED ZNF263 WILD-TYPE 
               7              241 
[1] "CHEK2 MUTATION ANALYSIS"
[1] 3
  CHEK2 MUTATED CHEK2 WILD-TYPE 
             13             235 
  CHEK2 MUTATED CHEK2 WILD-TYPE 
             13             235 
[1] "MGA MUTATION ANALYSIS"
[1] 3
  MGA MUTATED MGA WILD-TYPE 
           26           222 
  MGA MUTATED MGA WILD-TYPE 
           26           222 
[1] "RHBDD3 MUTATION ANALYSIS"
[1] 3
  RHBDD3 MUTATED RHBDD3 WILD-TYPE 
               4              244 
  RHBDD3 MUTATED RHBDD3 WILD-TYPE 
               4              244 
[1] "TAP1 MUTATION ANALYSIS"
[1] 3
  TAP1 MUTATED TAP1 WILD-TYPE 
             8            240 
  TAP1 MUTATED TAP1 WILD-TYPE 
             8            240 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           20           228 
  RB1 MUTATED RB1 WILD-TYPE 
           20           228 
[1] "SLC1A3 MUTATION ANALYSIS"
[1] 3
  SLC1A3 MUTATED SLC1A3 WILD-TYPE 
              12              236 
  SLC1A3 MUTATED SLC1A3 WILD-TYPE 
              12              236 
[1] "ATAD5 MUTATION ANALYSIS"
[1] 3
  ATAD5 MUTATED ATAD5 WILD-TYPE 
             17             231 
  ATAD5 MUTATED ATAD5 WILD-TYPE 
             17             231 
[1] "ALG8 MUTATION ANALYSIS"
[1] 3
  ALG8 MUTATED ALG8 WILD-TYPE 
            10            238 
  ALG8 MUTATED ALG8 WILD-TYPE 
            10            238 
[1] "TIGD4 MUTATION ANALYSIS"
[1] 3
  TIGD4 MUTATED TIGD4 WILD-TYPE 
             13             235 
  TIGD4 MUTATED TIGD4 WILD-TYPE 
             13             235 
[1] "PARG MUTATION ANALYSIS"
[1] 3
  PARG MUTATED PARG WILD-TYPE 
             9            239 
  PARG MUTATED PARG WILD-TYPE 
             9            239 
[1] "FAT1 MUTATION ANALYSIS"
[1] 3
  FAT1 MUTATED FAT1 WILD-TYPE 
            40            208 
  FAT1 MUTATED FAT1 WILD-TYPE 
            40            208 
[1] "DYM MUTATION ANALYSIS"
[1] 3
  DYM MUTATED DYM WILD-TYPE 
           10           238 
  DYM MUTATED DYM WILD-TYPE 
           10           238 
[1] "PSMD3 MUTATION ANALYSIS"
[1] 3
  PSMD3 MUTATED PSMD3 WILD-TYPE 
             11             237 
  PSMD3 MUTATED PSMD3 WILD-TYPE 
             11             237 
[1] "PPM1D MUTATION ANALYSIS"
[1] 3
  PPM1D MUTATED PPM1D WILD-TYPE 
             11             237 
  PPM1D MUTATED PPM1D WILD-TYPE 
             11             237 
[1] "ZMYM2 MUTATION ANALYSIS"
[1] 3
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
             17             231 
  ZMYM2 MUTATED ZMYM2 WILD-TYPE 
             17             231 
[1] "INPP4B MUTATION ANALYSIS"
[1] 3
  INPP4B MUTATED INPP4B WILD-TYPE 
              12              236 
  INPP4B MUTATED INPP4B WILD-TYPE 
              12              236 
[1] "USP28 MUTATION ANALYSIS"
[1] 3
  USP28 MUTATED USP28 WILD-TYPE 
             10             238 
  USP28 MUTATED USP28 WILD-TYPE 
             10             238 
[1] "EMR1 MUTATION ANALYSIS"
[1] 3
  EMR1 MUTATED EMR1 WILD-TYPE 
            13            235 
  EMR1 MUTATED EMR1 WILD-TYPE 
            13            235 
[1] "ZNF385B MUTATION ANALYSIS"
[1] 3
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                7               241 
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                7               241 
[1] "RAE1 MUTATION ANALYSIS"
[1] 3
  RAE1 MUTATED RAE1 WILD-TYPE 
            11            237 
  RAE1 MUTATED RAE1 WILD-TYPE 
            11            237 
[1] "TRIM59 MUTATION ANALYSIS"
[1] 3
  TRIM59 MUTATED TRIM59 WILD-TYPE 
               9              239 
  TRIM59 MUTATED TRIM59 WILD-TYPE 
               9              239 
[1] "ZNF721 MUTATION ANALYSIS"
[1] 3
  ZNF721 MUTATED ZNF721 WILD-TYPE 
              13              235 
  ZNF721 MUTATED ZNF721 WILD-TYPE 
              13              235 
[1] "MCTP1 MUTATION ANALYSIS"
[1] 3
  MCTP1 MUTATED MCTP1 WILD-TYPE 
             13             235 
  MCTP1 MUTATED MCTP1 WILD-TYPE 
             13             235 
[1] "ZNF774 MUTATION ANALYSIS"
[1] 3
  ZNF774 MUTATED ZNF774 WILD-TYPE 
              10              238 
  ZNF774 MUTATED ZNF774 WILD-TYPE 
              10              238 
[1] "FAM9A MUTATION ANALYSIS"
[1] 3
  FAM9A MUTATED FAM9A WILD-TYPE 
             14             234 
  FAM9A MUTATED FAM9A WILD-TYPE 
             14             234 
[1] "CFP MUTATION ANALYSIS"
[1] 3
  CFP MUTATED CFP WILD-TYPE 
            8           240 
  CFP MUTATED CFP WILD-TYPE 
            8           240 
[1] "PER3 MUTATION ANALYSIS"
[1] 3
  PER3 MUTATED PER3 WILD-TYPE 
            12            236 
  PER3 MUTATED PER3 WILD-TYPE 
            12            236 
[1] "ZRANB3 MUTATION ANALYSIS"
[1] 3
  ZRANB3 MUTATED ZRANB3 WILD-TYPE 
               8              240 
  ZRANB3 MUTATED ZRANB3 WILD-TYPE 
               8              240 
[1] "OMA1 MUTATION ANALYSIS"
[1] 3
  OMA1 MUTATED OMA1 WILD-TYPE 
            10            238 
  OMA1 MUTATED OMA1 WILD-TYPE 
            10            238 
[1] "CLDN15 MUTATION ANALYSIS"
[1] 3
  CLDN15 MUTATED CLDN15 WILD-TYPE 
               5              243 
  CLDN15 MUTATED CLDN15 WILD-TYPE 
               5              243 
[1] "TTC39C MUTATION ANALYSIS"
[1] 3
  TTC39C MUTATED TTC39C WILD-TYPE 
               7              241 
  TTC39C MUTATED TTC39C WILD-TYPE 
               7              241 
[1] "TXNRD1 MUTATION ANALYSIS"
[1] 3
  TXNRD1 MUTATED TXNRD1 WILD-TYPE 
               8              240 
  TXNRD1 MUTATED TXNRD1 WILD-TYPE 
               8              240 
[1] "MECOM MUTATION ANALYSIS"
[1] 3
  MECOM MUTATED MECOM WILD-TYPE 
             12             236 
  MECOM MUTATED MECOM WILD-TYPE 
             12             236 
[1] "CCDC147 MUTATION ANALYSIS"
[1] 3
  CCDC147 MUTATED CCDC147 WILD-TYPE 
               15               233 
  CCDC147 MUTATED CCDC147 WILD-TYPE 
               15               233 
[1] "SACS MUTATION ANALYSIS"
[1] 3
  SACS MUTATED SACS WILD-TYPE 
            26            222 
  SACS MUTATED SACS WILD-TYPE 
            26            222 
[1] "MUTED MUTATION ANALYSIS"
[1] 3
  MUTED MUTATED MUTED WILD-TYPE 
              7             241 
  MUTED MUTATED MUTED WILD-TYPE 
              7             241 
[1] "SLC44A3 MUTATION ANALYSIS"
[1] 3
  SLC44A3 MUTATED SLC44A3 WILD-TYPE 
                6               242 
  SLC44A3 MUTATED SLC44A3 WILD-TYPE 
                6               242 
[1] "ZNF674 MUTATION ANALYSIS"
[1] 3
  ZNF674 MUTATED ZNF674 WILD-TYPE 
              14              234 
  ZNF674 MUTATED ZNF674 WILD-TYPE 
              14              234 
[1] "CCDC144A MUTATION ANALYSIS"
[1] 3
  CCDC144A MUTATED CCDC144A WILD-TYPE 
                18                230 
  CCDC144A MUTATED CCDC144A WILD-TYPE 
                18                230 
[1] "OR8B8 MUTATION ANALYSIS"
[1] 3
  OR8B8 MUTATED OR8B8 WILD-TYPE 
              7             241 
  OR8B8 MUTATED OR8B8 WILD-TYPE 
              7             241 
[1] "LNX2 MUTATION ANALYSIS"
[1] 3
  LNX2 MUTATED LNX2 WILD-TYPE 
            14            234 
  LNX2 MUTATED LNX2 WILD-TYPE 
            14            234 
[1] "TMEM62 MUTATION ANALYSIS"
[1] 3
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               9              239 
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               9              239 
[1] "ATF7IP MUTATION ANALYSIS"
[1] 3
  ATF7IP MUTATED ATF7IP WILD-TYPE 
              17              231 
  ATF7IP MUTATED ATF7IP WILD-TYPE 
              17              231 
[1] "IL20 MUTATION ANALYSIS"
[1] 3
  IL20 MUTATED IL20 WILD-TYPE 
             7            241 
  IL20 MUTATED IL20 WILD-TYPE 
             7            241 
[1] "C3AR1 MUTATION ANALYSIS"
[1] 3
  C3AR1 MUTATED C3AR1 WILD-TYPE 
              8             240 
  C3AR1 MUTATED C3AR1 WILD-TYPE 
              8             240 
[1] "PKD2 MUTATION ANALYSIS"
[1] 3
  PKD2 MUTATED PKD2 WILD-TYPE 
             8            240 
  PKD2 MUTATED PKD2 WILD-TYPE 
             8            240 
[1] "BMP5 MUTATION ANALYSIS"
[1] 3
  BMP5 MUTATED BMP5 WILD-TYPE 
            13            235 
  BMP5 MUTATED BMP5 WILD-TYPE 
            13            235 
[1] "OR52I2 MUTATION ANALYSIS"
[1] 3
  OR52I2 MUTATED OR52I2 WILD-TYPE 
               8              240 
  OR52I2 MUTATED OR52I2 WILD-TYPE 
               8              240 
[1] "C1ORF100 MUTATION ANALYSIS"
[1] 3
  C1ORF100 MUTATED C1ORF100 WILD-TYPE 
                 9                239 
  C1ORF100 MUTATED C1ORF100 WILD-TYPE 
                 9                239 
[1] "CCDC160 MUTATION ANALYSIS"
[1] 3
  CCDC160 MUTATED CCDC160 WILD-TYPE 
               11               237 
  CCDC160 MUTATED CCDC160 WILD-TYPE 
               11               237 
[1] "NAA15 MUTATION ANALYSIS"
[1] 3
  NAA15 MUTATED NAA15 WILD-TYPE 
             14             234 
  NAA15 MUTATED NAA15 WILD-TYPE 
             14             234 
[1] "RNF31 MUTATION ANALYSIS"
[1] 3
  RNF31 MUTATED RNF31 WILD-TYPE 
             17             231 
  RNF31 MUTATED RNF31 WILD-TYPE 
             17             231 
[1] "NFE2L3 MUTATION ANALYSIS"
[1] 3
  NFE2L3 MUTATED NFE2L3 WILD-TYPE 
              12              236 
  NFE2L3 MUTATED NFE2L3 WILD-TYPE 
              12              236 
[1] "ZKSCAN1 MUTATION ANALYSIS"
[1] 3
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                7               241 
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                7               241 
[1] "CDKL1 MUTATION ANALYSIS"
[1] 3
  CDKL1 MUTATED CDKL1 WILD-TYPE 
              7             241 
  CDKL1 MUTATED CDKL1 WILD-TYPE 
              7             241 
[1] "ERBB3 MUTATION ANALYSIS"
[1] 3
  ERBB3 MUTATED ERBB3 WILD-TYPE 
             17             231 
  ERBB3 MUTATED ERBB3 WILD-TYPE 
             17             231 
[1] "SELP MUTATION ANALYSIS"
[1] 3
  SELP MUTATED SELP WILD-TYPE 
             9            239 
  SELP MUTATED SELP WILD-TYPE 
             9            239 
[1] "PPIG MUTATION ANALYSIS"
[1] 3
  PPIG MUTATED PPIG WILD-TYPE 
            16            232 
  PPIG MUTATED PPIG WILD-TYPE 
            16            232 
[1] "GPRASP1 MUTATION ANALYSIS"
[1] 3
  GPRASP1 MUTATED GPRASP1 WILD-TYPE 
               21               227 
  GPRASP1 MUTATED GPRASP1 WILD-TYPE 
               21               227 
[1] "REV3L MUTATION ANALYSIS"
[1] 3
  REV3L MUTATED REV3L WILD-TYPE 
             20             228 
  REV3L MUTATED REV3L WILD-TYPE 
             20             228 
[1] "CTNNA1 MUTATION ANALYSIS"
[1] 3
  CTNNA1 MUTATED CTNNA1 WILD-TYPE 
              13              235 
  CTNNA1 MUTATED CTNNA1 WILD-TYPE 
              13              235 
[1] "MRPL47 MUTATION ANALYSIS"
[1] 3
  MRPL47 MUTATED MRPL47 WILD-TYPE 
               6              242 
  MRPL47 MUTATED MRPL47 WILD-TYPE 
               6              242 
[1] "DEPDC1B MUTATION ANALYSIS"
[1] 3
  DEPDC1B MUTATED DEPDC1B WILD-TYPE 
               11               237 
  DEPDC1B MUTATED DEPDC1B WILD-TYPE 
               11               237 
[1] "CASP8 MUTATION ANALYSIS"
[1] 3
  CASP8 MUTATED CASP8 WILD-TYPE 
             17             231 
  CASP8 MUTATED CASP8 WILD-TYPE 
             17             231 
[1] "CACNB4 MUTATION ANALYSIS"
[1] 3
  CACNB4 MUTATED CACNB4 WILD-TYPE 
              10              238 
  CACNB4 MUTATED CACNB4 WILD-TYPE 
              10              238 
[1] "BHLHB9 MUTATION ANALYSIS"
[1] 3
  BHLHB9 MUTATED BHLHB9 WILD-TYPE 
               8              240 
  BHLHB9 MUTATED BHLHB9 WILD-TYPE 
               8              240 
[1] "C22ORF25 MUTATION ANALYSIS"
[1] 3
  C22ORF25 MUTATED C22ORF25 WILD-TYPE 
                 6                242 
  C22ORF25 MUTATED C22ORF25 WILD-TYPE 
                 6                242 
[1] "GALNT7 MUTATION ANALYSIS"
[1] 3
  GALNT7 MUTATED GALNT7 WILD-TYPE 
              11              237 
  GALNT7 MUTATED GALNT7 WILD-TYPE 
              11              237 
[1] "LGMN MUTATION ANALYSIS"
[1] 3
  LGMN MUTATED LGMN WILD-TYPE 
             7            241 
  LGMN MUTATED LGMN WILD-TYPE 
             7            241 
[1] "EPS8 MUTATION ANALYSIS"
[1] 3
  EPS8 MUTATED EPS8 WILD-TYPE 
            12            236 
  EPS8 MUTATED EPS8 WILD-TYPE 
            12            236 
[1] "TGOLN2 MUTATION ANALYSIS"
[1] 3
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               3              245 
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               3              245 
[1] "TPX2 MUTATION ANALYSIS"
[1] 3
  TPX2 MUTATED TPX2 WILD-TYPE 
             6            242 
  TPX2 MUTATED TPX2 WILD-TYPE 
             6            242 
[1] "C14ORF118 MUTATION ANALYSIS"
[1] 3
  C14ORF118 MUTATED C14ORF118 WILD-TYPE 
                 15                 233 
  C14ORF118 MUTATED C14ORF118 WILD-TYPE 
                 15                 233 
[1] "SLC34A3 MUTATION ANALYSIS"
[1] 3
  SLC34A3 MUTATED SLC34A3 WILD-TYPE 
                6               242 
  SLC34A3 MUTATED SLC34A3 WILD-TYPE 
                6               242 
[1] "ZNF662 MUTATION ANALYSIS"
[1] 3
  ZNF662 MUTATED ZNF662 WILD-TYPE 
              13              235 
  ZNF662 MUTATED ZNF662 WILD-TYPE 
              13              235 
[1] "ZDBF2 MUTATION ANALYSIS"
[1] 3
  ZDBF2 MUTATED ZDBF2 WILD-TYPE 
             18             230 
  ZDBF2 MUTATED ZDBF2 WILD-TYPE 
             18             230 
[1] "SFRP4 MUTATION ANALYSIS"
[1] 3
  SFRP4 MUTATED SFRP4 WILD-TYPE 
              8             240 
  SFRP4 MUTATED SFRP4 WILD-TYPE 
              8             240 
[1] "CCDC146 MUTATION ANALYSIS"
[1] 3
  CCDC146 MUTATED CCDC146 WILD-TYPE 
               14               234 
  CCDC146 MUTATED CCDC146 WILD-TYPE 
               14               234 
[1] "C7ORF60 MUTATION ANALYSIS"
[1] 3
  C7ORF60 MUTATED C7ORF60 WILD-TYPE 
               10               238 
  C7ORF60 MUTATED C7ORF60 WILD-TYPE 
               10               238 
[1] "ZNF649 MUTATION ANALYSIS"
[1] 3
  ZNF649 MUTATED ZNF649 WILD-TYPE 
              14              234 
  ZNF649 MUTATED ZNF649 WILD-TYPE 
              14              234 
[1] "RASSF9 MUTATION ANALYSIS"
[1] 3
  RASSF9 MUTATED RASSF9 WILD-TYPE 
               9              239 
  RASSF9 MUTATED RASSF9 WILD-TYPE 
               9              239 
[1] "NIPA2 MUTATION ANALYSIS"
[1] 3
  NIPA2 MUTATED NIPA2 WILD-TYPE 
              8             240 
  NIPA2 MUTATED NIPA2 WILD-TYPE 
              8             240 
[1] "FILIP1 MUTATION ANALYSIS"
[1] 3
  FILIP1 MUTATED FILIP1 WILD-TYPE 
              16              232 
  FILIP1 MUTATED FILIP1 WILD-TYPE 
              16              232 
[1] "PHKA2 MUTATION ANALYSIS"
[1] 3
  PHKA2 MUTATED PHKA2 WILD-TYPE 
             16             232 
  PHKA2 MUTATED PHKA2 WILD-TYPE 
             16             232 
[1] "COBLL1 MUTATION ANALYSIS"
[1] 3
  COBLL1 MUTATED COBLL1 WILD-TYPE 
              15              233 
  COBLL1 MUTATED COBLL1 WILD-TYPE 
              15              233 
[1] "AGPAT9 MUTATION ANALYSIS"
[1] 3
  AGPAT9 MUTATED AGPAT9 WILD-TYPE 
               8              240 
  AGPAT9 MUTATED AGPAT9 WILD-TYPE 
               8              240 
[1] "NOP56 MUTATION ANALYSIS"
[1] 3
  NOP56 MUTATED NOP56 WILD-TYPE 
             11             237 
  NOP56 MUTATED NOP56 WILD-TYPE 
             11             237 
[1] "RBL2 MUTATION ANALYSIS"
[1] 3
  RBL2 MUTATED RBL2 WILD-TYPE 
            12            236 
  RBL2 MUTATED RBL2 WILD-TYPE 
            12            236 
[1] "ABCC6 MUTATION ANALYSIS"
[1] 3
  ABCC6 MUTATED ABCC6 WILD-TYPE 
             12             236 
  ABCC6 MUTATED ABCC6 WILD-TYPE 
             12             236 
[1] "CCDC104 MUTATION ANALYSIS"
[1] 3
  CCDC104 MUTATED CCDC104 WILD-TYPE 
               10               238 
  CCDC104 MUTATED CCDC104 WILD-TYPE 
               10               238 
[1] "MLL2 MUTATION ANALYSIS"
[1] 3
  MLL2 MUTATED MLL2 WILD-TYPE 
            33            215 
  MLL2 MUTATED MLL2 WILD-TYPE 
            33            215 
[1] "SSH2 MUTATION ANALYSIS"
[1] 3
  SSH2 MUTATED SSH2 WILD-TYPE 
            12            236 
  SSH2 MUTATED SSH2 WILD-TYPE 
            12            236 
[1] "ZNF709 MUTATION ANALYSIS"
[1] 3
  ZNF709 MUTATED ZNF709 WILD-TYPE 
              12              236 
  ZNF709 MUTATED ZNF709 WILD-TYPE 
              12              236 
[1] "BRDT MUTATION ANALYSIS"
[1] 3
  BRDT MUTATED BRDT WILD-TYPE 
            14            234 
  BRDT MUTATED BRDT WILD-TYPE 
            14            234 
[1] "SH3BGRL MUTATION ANALYSIS"
[1] 3
  SH3BGRL MUTATED SH3BGRL WILD-TYPE 
                6               242 
  SH3BGRL MUTATED SH3BGRL WILD-TYPE 
                6               242 
[1] "MLH3 MUTATION ANALYSIS"
[1] 3
  MLH3 MUTATED MLH3 WILD-TYPE 
            17            231 
  MLH3 MUTATED MLH3 WILD-TYPE 
            17            231 
[1] "CCDC150 MUTATION ANALYSIS"
[1] 3
  CCDC150 MUTATED CCDC150 WILD-TYPE 
               12               236 
  CCDC150 MUTATED CCDC150 WILD-TYPE 
               12               236 
[1] "NT5C3 MUTATION ANALYSIS"
[1] 3
  NT5C3 MUTATED NT5C3 WILD-TYPE 
              7             241 
  NT5C3 MUTATED NT5C3 WILD-TYPE 
              7             241 
[1] "APAF1 MUTATION ANALYSIS"
[1] 3
  APAF1 MUTATED APAF1 WILD-TYPE 
             13             235 
  APAF1 MUTATED APAF1 WILD-TYPE 
             13             235 
[1] "KANK4 MUTATION ANALYSIS"
[1] 3
  KANK4 MUTATED KANK4 WILD-TYPE 
             11             237 
  KANK4 MUTATED KANK4 WILD-TYPE 
             11             237 
[1] "NRIP1 MUTATION ANALYSIS"
[1] 3
  NRIP1 MUTATED NRIP1 WILD-TYPE 
             13             235 
  NRIP1 MUTATED NRIP1 WILD-TYPE 
             13             235 
[1] "GTF2H1 MUTATION ANALYSIS"
[1] 3
  GTF2H1 MUTATED GTF2H1 WILD-TYPE 
               8              240 
  GTF2H1 MUTATED GTF2H1 WILD-TYPE 
               8              240 
[1] "ASXL2 MUTATION ANALYSIS"
[1] 3
  ASXL2 MUTATED ASXL2 WILD-TYPE 
             14             234 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
             14             234 
[1] "ZNF611 MUTATION ANALYSIS"
[1] 3
  ZNF611 MUTATED ZNF611 WILD-TYPE 
              12              236 
  ZNF611 MUTATED ZNF611 WILD-TYPE 
              12              236 
[1] "SUN3 MUTATION ANALYSIS"
[1] 3
  SUN3 MUTATED SUN3 WILD-TYPE 
             6            242 
  SUN3 MUTATED SUN3 WILD-TYPE 
             6            242 
[1] "ZNF195 MUTATION ANALYSIS"
[1] 3
  ZNF195 MUTATED ZNF195 WILD-TYPE 
              11              237 
  ZNF195 MUTATED ZNF195 WILD-TYPE 
              11              237 
[1] "EXOSC9 MUTATION ANALYSIS"
[1] 3
  EXOSC9 MUTATED EXOSC9 WILD-TYPE 
              10              238 
  EXOSC9 MUTATED EXOSC9 WILD-TYPE 
              10              238 
[1] "MFN2 MUTATION ANALYSIS"
[1] 3
  MFN2 MUTATED MFN2 WILD-TYPE 
             9            239 
  MFN2 MUTATED MFN2 WILD-TYPE 
             9            239 
[1] "LIMA1 MUTATION ANALYSIS"
[1] 3
  LIMA1 MUTATED LIMA1 WILD-TYPE 
              8             240 
  LIMA1 MUTATED LIMA1 WILD-TYPE 
              8             240 
[1] "PTPN12 MUTATION ANALYSIS"
[1] 3
  PTPN12 MUTATED PTPN12 WILD-TYPE 
              10              238 
  PTPN12 MUTATED PTPN12 WILD-TYPE 
              10              238 
[1] "MTF2 MUTATION ANALYSIS"
[1] 3
  MTF2 MUTATED MTF2 WILD-TYPE 
             9            239 
  MTF2 MUTATED MTF2 WILD-TYPE 
             9            239 
[1] "MLL4 MUTATION ANALYSIS"
[1] 3
  MLL4 MUTATED MLL4 WILD-TYPE 
            30            218 
  MLL4 MUTATED MLL4 WILD-TYPE 
            30            218 
[1] "C1ORF101 MUTATION ANALYSIS"
[1] 3
  C1ORF101 MUTATED C1ORF101 WILD-TYPE 
                12                236 
  C1ORF101 MUTATED C1ORF101 WILD-TYPE 
                12                236 
[1] "MBOAT2 MUTATION ANALYSIS"
[1] 3
  MBOAT2 MUTATED MBOAT2 WILD-TYPE 
               7              241 
  MBOAT2 MUTATED MBOAT2 WILD-TYPE 
               7              241 
[1] "CHD4 MUTATION ANALYSIS"
[1] 3
  CHD4 MUTATED CHD4 WILD-TYPE 
            35            213 
  CHD4 MUTATED CHD4 WILD-TYPE 
            35            213 
[1] "SESN3 MUTATION ANALYSIS"
[1] 3
  SESN3 MUTATED SESN3 WILD-TYPE 
             13             235 
  SESN3 MUTATED SESN3 WILD-TYPE 
             13             235 
[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 248 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	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 248 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=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE
CN_CNMF, nv=5, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=6, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED       11      6      9      7
  PTEN WILD-TYPE      1     12      2      3
D1V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           11              1
  CLUS_2            6             12
  CLUS_3            9              2
  CLUS_4            7              3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        8      0      6      7     12
  PTEN WILD-TYPE      4     10      1      0      3
D1V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            8              4
  CLUS_2            0             10
  CLUS_3            6              1
  CLUS_4            7              0
  CLUS_5           12              3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4    126      6      3     17
  PTEN WILD-TYPE     52     26      5      2      1
D1V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4             52
  CLUS_2          126             26
  CLUS_3            6              5
  CLUS_4            3              2
  CLUS_5           17              1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        6     29     46
  PTEN WILD-TYPE     37     10      7
D1V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6             37
  CLUS_2           29             10
  CLUS_3           46              7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       26     21     33      9     29     14
  PTEN WILD-TYPE     13     15      4      1     11     10
D1V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           26             13
  CLUS_2           21             15
  CLUS_3           33              4
  CLUS_4            9              1
  CLUS_5           29             11
  CLUS_6           14             10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       42     44     36     10
  PTEN WILD-TYPE     23     20      4      7
D1V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           42             23
  CLUS_2           44             20
  CLUS_3           36              4
  CLUS_4           10              7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       17     68     75
  PTEN WILD-TYPE     62     17      8
D1V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           17             62
  CLUS_2           68             17
  CLUS_3           75              8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTEN MUTATED        3     33      5     28     21     29     41
  PTEN WILD-TYPE     41      8     12      5     14      2      5
D1V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             41
  CLUS_2           33              8
  CLUS_3            5             12
  CLUS_4           28              5
  CLUS_5           21             14
  CLUS_6           29              2
  CLUS_7           41              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       20     56     82
  PTEN WILD-TYPE     49     23     10
D1V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           20             49
  CLUS_2           56             23
  CLUS_3           82             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 CLUS_4
  PTEN MUTATED       49     31     72      6
  PTEN WILD-TYPE     24     12      7     39
D1V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           49             24
  CLUS_2           31             12
  CLUS_3           72              7
  CLUS_4            6             39
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      8     52
  PTEN WILD-TYPE     22     11     12
D1V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            7             22
  CLUS_2            8             11
  CLUS_3           52             12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     43     14
  PTEN WILD-TYPE     23      5     17
D1V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           10             23
  CLUS_2           43              5
  CLUS_3           14             17
[1] 3 2
[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 = PIK3R1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        5      2      6      3
  PIK3R1 WILD-TYPE      7     16      5      7
D2V1, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              5                7
  CLUS_2              2               16
  CLUS_3              6                5
  CLUS_4              3                7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      0      4      3      6
  PIK3R1 WILD-TYPE      9     10      3      4      9
D2V2, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3                9
  CLUS_2              0               10
  CLUS_3              4                3
  CLUS_4              3                4
  CLUS_5              6                9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        6     62      4      2      8
  PIK3R1 WILD-TYPE     50     90      7      3     10
D2V3, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              6               50
  CLUS_2             62               90
  CLUS_3              4                7
  CLUS_4              2                3
  CLUS_5              8               10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5     11     29
  PIK3R1 WILD-TYPE     38     28     24
D2V4, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              5               38
  CLUS_2             11               28
  CLUS_3             29               24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       13     11     18      3     16      9
  PIK3R1 WILD-TYPE     26     25     19      7     24     15
D2V5, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             13               26
  CLUS_2             11               25
  CLUS_3             18               19
  CLUS_4              3                7
  CLUS_5             16               24
  CLUS_6              9               15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     24     19      6
  PIK3R1 WILD-TYPE     44     40     21     11
D2V6, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             21               44
  CLUS_2             24               40
  CLUS_3             19               21
  CLUS_4              6               11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     37     34
  PIK3R1 WILD-TYPE     67     48     49
D2V7, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             12               67
  CLUS_2             37               48
  CLUS_3             34               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 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3R1 MUTATED        3     17      3     15     11     14     20
  PIK3R1 WILD-TYPE     41     24     14     18     24     17     26
D2V8, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              3               41
  CLUS_2             17               24
  CLUS_3              3               14
  CLUS_4             15               18
  CLUS_5             11               24
  CLUS_6             14               17
  CLUS_7             20               26
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       15     28     38
  PIK3R1 WILD-TYPE     54     51     54
D2V9, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             15               54
  CLUS_2             28               51
  CLUS_3             38               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 CLUS_4
  PIK3R1 MUTATED       26     16     32      7
  PIK3R1 WILD-TYPE     47     27     47     38
D2V10, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             26               47
  CLUS_2             16               27
  CLUS_3             32               47
  CLUS_4              7               38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      5     26
  PIK3R1 WILD-TYPE     25     14     38
D2V11, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              4               25
  CLUS_2              5               14
  CLUS_3             26               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
  PIK3R1 MUTATED        6     19     10
  PIK3R1 WILD-TYPE     27     29     21
D2V12, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              6               27
  CLUS_2             19               29
  CLUS_3             10               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"

Clustering(3) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        2     13      1      0
  TP53 WILD-TYPE     10      5     10     10
D3V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2             10
  CLUS_2           13              5
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4     10      1      1      0
  TP53 WILD-TYPE      8      0      6      6     15
D3V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            4              8
  CLUS_2           10              0
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       52     10      3      0      3
  TP53 WILD-TYPE      4    142      8      5     15
D3V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           52              4
  CLUS_2           10            142
  CLUS_3            3              8
  CLUS_4            0              5
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       32      3      5
  TP53 WILD-TYPE     11     36     48
D3V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           32             11
  CLUS_2            3             36
  CLUS_3            5             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 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        9     19      4      2      2      8
  TP53 WILD-TYPE     30     17     33      8     38     16
D3V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9             30
  CLUS_2           19             17
  CLUS_3            4             33
  CLUS_4            2              8
  CLUS_5            2             38
  CLUS_6            8             16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     13      6      4
  TP53 WILD-TYPE     44     51     34     13
D3V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           21             44
  CLUS_2           13             51
  CLUS_3            6             34
  CLUS_4            4             13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       58      7      4
  TP53 WILD-TYPE     21     78     79
D3V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           58             21
  CLUS_2            7             78
  CLUS_3            4             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
  TP53 MUTATED       38      0     11      4     12      3      1
  TP53 WILD-TYPE      6     41      6     29     23     28     45
D3V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           38              6
  CLUS_2            0             41
  CLUS_3           11              6
  CLUS_4            4             29
  CLUS_5           12             23
  CLUS_6            3             28
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       46     11      7
  TP53 WILD-TYPE     23     68     85
D3V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           46             23
  CLUS_2           11             68
  CLUS_3            7             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
  TP53 MUTATED       24      1      4     35
  TP53 WILD-TYPE     49     42     75     10
D3V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           24             49
  CLUS_2            1             42
  CLUS_3            4             75
  CLUS_4           35             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       21      6      9
  TP53 WILD-TYPE      8     13     55
D3V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           21              8
  CLUS_2            6             13
  CLUS_3            9             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
  TP53 MUTATED       23      3     10
  TP53 WILD-TYPE     10     45     21
D3V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           23             10
  CLUS_2            3             45
  CLUS_3           10             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"

Clustering(4) Variable = CTCF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        3      1      4      1
  CTCF WILD-TYPE      9     17      7      9
D4V1, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3              9
  CLUS_2            1             17
  CLUS_3            4              7
  CLUS_4            1              9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      0      3      1      2
  CTCF WILD-TYPE      9     10      4      6     13
D4V2, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3              9
  CLUS_2            0             10
  CLUS_3            3              4
  CLUS_4            1              6
  CLUS_5            2             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 CLUS_4 CLUS_5
  CTCF MUTATED        0     38      0      0      3
  CTCF WILD-TYPE     56    114     11      5     15
D4V3, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            0             56
  CLUS_2           38            114
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3     10      8
  CTCF WILD-TYPE     40     29     45
D4V4, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3             40
  CLUS_2           10             29
  CLUS_3            8             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 CLUS_4 CLUS_5 CLUS_6
  CTCF MUTATED        9      3      5      5      9      3
  CTCF WILD-TYPE     30     33     32      5     31     21
D4V5, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            9             30
  CLUS_2            3             33
  CLUS_3            5             32
  CLUS_4            5              5
  CLUS_5            9             31
  CLUS_6            3             21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       12     10     10      2
  CTCF WILD-TYPE     53     54     30     15
D4V6, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1           12             53
  CLUS_2           10             54
  CLUS_3           10             30
  CLUS_4            2             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     17     23
  CTCF WILD-TYPE     75     68     60
D4V7, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            4             75
  CLUS_2           17             68
  CLUS_3           23             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
  CTCF MUTATED        0      8      3      7      4      8     14
  CTCF WILD-TYPE     44     33     14     26     31     23     32
D4V8, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            0             44
  CLUS_2            8             33
  CLUS_3            3             14
  CLUS_4            7             26
  CLUS_5            4             31
  CLUS_6            8             23
  CLUS_7           14             32
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        5     15     24
  CTCF WILD-TYPE     64     64     68
D4V9, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            5             64
  CLUS_2           15             64
  CLUS_3           24             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 CLUS_4
  CTCF MUTATED        9     11     21      3
  CTCF WILD-TYPE     64     32     58     42
D4V10, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            9             64
  CLUS_2           11             32
  CLUS_3           21             58
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      3     11
  CTCF WILD-TYPE     29     16     53
D4V11, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            0             29
  CLUS_2            3             16
  CLUS_3           11             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
  CTCF MUTATED        1     11      2
  CTCF WILD-TYPE     32     37     29
D4V12, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             32
  CLUS_2           11             37
  CLUS_3            2             29
[1] 3 2
[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 = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        3      4      4      0
  FBXW7 WILD-TYPE      9     14      7     10
D5V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             4              14
  CLUS_3             4               7
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      3      3      1      1
  FBXW7 WILD-TYPE      9      7      4      6     14
D5V2, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             3               7
  CLUS_3             3               4
  CLUS_4             1               6
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       13     24      0      0      2
  FBXW7 WILD-TYPE     43    128     11      5     16
D5V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            13              43
  CLUS_2            24             128
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  FBXW7 MUTATED       11      2      9
  FBXW7 WILD-TYPE     32     37     44
D5V4, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            11              32
  CLUS_2             2              37
  CLUS_3             9              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 CLUS_4 CLUS_5 CLUS_6
  FBXW7 MUTATED       10      5      5      4      3      4
  FBXW7 WILD-TYPE     29     31     32      6     37     20
D5V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            10              29
  CLUS_2             5              31
  CLUS_3             5              32
  CLUS_4             4               6
  CLUS_5             3              37
  CLUS_6             4              20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14      7      6      4
  FBXW7 WILD-TYPE     51     57     34     13
D5V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            14              51
  CLUS_2             7              57
  CLUS_3             6              34
  CLUS_4             4              13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       19     10     10
  FBXW7 WILD-TYPE     60     75     73
D5V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            19              60
  CLUS_2            10              75
  CLUS_3            10              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FBXW7 MUTATED       12      0      4      8      5      4      6
  FBXW7 WILD-TYPE     32     41     13     25     30     27     40
D5V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            12              32
  CLUS_2             0              41
  CLUS_3             4              13
  CLUS_4             8              25
  CLUS_5             5              30
  CLUS_6             4              27
  CLUS_7             6              40
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       11     12     12
  FBXW7 WILD-TYPE     58     67     80
D5V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            11              58
  CLUS_2            12              67
  CLUS_3            12              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
  FBXW7 MUTATED       12      2      8     13
  FBXW7 WILD-TYPE     61     41     71     32
D5V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            12              61
  CLUS_2             2              41
  CLUS_3             8              71
  CLUS_4            13              32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      7
  FBXW7 WILD-TYPE     22     17     57
D5V11, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             7              22
  CLUS_2             2              17
  CLUS_3             7              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
  FBXW7 MUTATED        8      3      5
  FBXW7 WILD-TYPE     25     45     26
D5V12, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             8              25
  CLUS_2             3              45
  CLUS_3             5              26
[1] 3 2
[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 = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        5      2      3      1
  KRAS WILD-TYPE      7     16      8      9
D6V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            5              7
  CLUS_2            2             16
  CLUS_3            3              8
  CLUS_4            1              9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      0      3      4      1
  KRAS WILD-TYPE      9     10      4      3     14
D6V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            3              9
  CLUS_2            0             10
  CLUS_3            3              4
  CLUS_4            4              3
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2     44      2      0      2
  KRAS WILD-TYPE     54    108      9      5     16
D6V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2             54
  CLUS_2           44            108
  CLUS_3            2              9
  CLUS_4            0              5
  CLUS_5            2             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
  KRAS MUTATED        5      8     17
  KRAS WILD-TYPE     38     31     36
D6V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            5             38
  CLUS_2            8             31
  CLUS_3           17             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        6      9     12      3      5      5
  KRAS WILD-TYPE     33     27     25      7     35     19
D6V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            6             33
  CLUS_2            9             27
  CLUS_3           12             25
  CLUS_4            3              7
  CLUS_5            5             35
  CLUS_6            5             19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14     10     14      2
  KRAS WILD-TYPE     51     54     26     15
D6V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           14             51
  CLUS_2           10             54
  CLUS_3           14             26
  CLUS_4            2             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       12     19     22
  KRAS WILD-TYPE     67     66     61
D6V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           12             67
  CLUS_2           19             66
  CLUS_3           22             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 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRAS MUTATED        4      2      1     14     10     10     12
  KRAS WILD-TYPE     40     39     16     19     25     21     34
D6V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4             40
  CLUS_2            2             39
  CLUS_3            1             16
  CLUS_4           14             19
  CLUS_5           10             25
  CLUS_6           10             21
  CLUS_7           12             34
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        7     19     26
  KRAS WILD-TYPE     62     60     66
D6V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            7             62
  CLUS_2           19             60
  CLUS_3           26             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
  KRAS MUTATED       21      4     22      5
  KRAS WILD-TYPE     52     39     57     40
D6V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           21             52
  CLUS_2            4             39
  CLUS_3           22             57
  CLUS_4            5             40
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      5     15
  KRAS WILD-TYPE     24     14     49
D6V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            5             24
  CLUS_2            5             14
  CLUS_3           15             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
  KRAS MUTATED        4     14      7
  KRAS WILD-TYPE     29     34     24
D6V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4             29
  CLUS_2           14             34
  CLUS_3            7             24
[1] 3 2
[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 = ARHGAP35 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP35 MUTATED        4      5      3      0
  ARHGAP35 WILD-TYPE      8     13      8     10
D7V1, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                5                 13
  CLUS_3                3                  8
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP35 MUTATED        4      2      2      1      3
  ARHGAP35 WILD-TYPE      8      8      5      6     12
D7V2, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                2                  8
  CLUS_3                2                  5
  CLUS_4                1                  6
  CLUS_5                3                 12
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARHGAP35 MUTATED        8     24      0      0      4
  ARHGAP35 WILD-TYPE     48    128     11      5     14
D7V3, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                8                 48
  CLUS_2               24                128
  CLUS_3                0                 11
  CLUS_4                0                  5
  CLUS_5                4                 14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP35 MUTATED        6      5      8
  ARHGAP35 WILD-TYPE     37     34     45
D7V4, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                6                 37
  CLUS_2                5                 34
  CLUS_3                8                 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 CLUS_4 CLUS_5 CLUS_6
  ARHGAP35 MUTATED       11      8      2      2      4      2
  ARHGAP35 WILD-TYPE     28     28     35      8     36     22
D7V5, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1               11                 28
  CLUS_2                8                 28
  CLUS_3                2                 35
  CLUS_4                2                  8
  CLUS_5                4                 36
  CLUS_6                2                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP35 MUTATED       16      7      4      2
  ARHGAP35 WILD-TYPE     49     57     36     15
D7V6, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1               16                 49
  CLUS_2                7                 57
  CLUS_3                4                 36
  CLUS_4                2                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP35 MUTATED       16     11      9
  ARHGAP35 WILD-TYPE     63     74     74
D7V7, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1               16                 63
  CLUS_2               11                 74
  CLUS_3                9                 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
  ARHGAP35 MUTATED        5      1      5     10      7      4      4
  ARHGAP35 WILD-TYPE     39     40     12     23     28     27     42
D7V8, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                5                 39
  CLUS_2                1                 40
  CLUS_3                5                 12
  CLUS_4               10                 23
  CLUS_5                7                 28
  CLUS_6                4                 27
  CLUS_7                4                 42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP35 MUTATED       10     13     10
  ARHGAP35 WILD-TYPE     59     66     82
D7V9, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1               10                 59
  CLUS_2               13                 66
  CLUS_3               10                 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
  ARHGAP35 MUTATED       13      3      8      9
  ARHGAP35 WILD-TYPE     60     40     71     36
D7V10, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1               13                 60
  CLUS_2                3                 40
  CLUS_3                8                 71
  CLUS_4                9                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP35 MUTATED        6      2      6
  ARHGAP35 WILD-TYPE     23     17     58
D7V11, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                6                 23
  CLUS_2                2                 17
  CLUS_3                6                 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
  ARHGAP35 MUTATED        6      3      5
  ARHGAP35 WILD-TYPE     27     45     26
D7V12, multiclass
        clus
vv       ARHGAP35 MUTATED ARHGAP35 WILD-TYPE
  CLUS_1                6                 27
  CLUS_2                3                 45
  CLUS_3                5                 26
[1] 3 2
[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 = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        7      8      6      6
  PIK3CA WILD-TYPE      5     10      5      4
D8V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7                5
  CLUS_2              8               10
  CLUS_3              6                5
  CLUS_4              6                4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        5      4      6      4      8
  PIK3CA WILD-TYPE      7      6      1      3      7
D8V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5                7
  CLUS_2              4                6
  CLUS_3              6                1
  CLUS_4              4                3
  CLUS_5              8                7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       26     84      5      4      9
  PIK3CA WILD-TYPE     30     68      6      1      9
D8V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             26               30
  CLUS_2             84               68
  CLUS_3              5                6
  CLUS_4              4                1
  CLUS_5              9                9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       21     22     26
  PIK3CA WILD-TYPE     22     17     27
D8V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             21               22
  CLUS_2             22               17
  CLUS_3             26               27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       17     22     19      7     18     15
  PIK3CA WILD-TYPE     22     14     18      3     22      9
D8V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             17               22
  CLUS_2             22               14
  CLUS_3             19               18
  CLUS_4              7                3
  CLUS_5             18               22
  CLUS_6             15                9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       32     32     24     10
  PIK3CA WILD-TYPE     33     32     16      7
D8V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             32               33
  CLUS_2             32               32
  CLUS_3             24               16
  CLUS_4             10                7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       39     46     46
  PIK3CA WILD-TYPE     40     39     37
D8V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             39               40
  CLUS_2             46               39
  CLUS_3             46               37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3CA MUTATED       21     22      6     18     23     17     24
  PIK3CA WILD-TYPE     23     19     11     15     12     14     22
D8V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             21               23
  CLUS_2             22               19
  CLUS_3              6               11
  CLUS_4             18               15
  CLUS_5             23               12
  CLUS_6             17               14
  CLUS_7             24               22
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       31     43     54
  PIK3CA WILD-TYPE     38     36     38
D8V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             31               38
  CLUS_2             43               36
  CLUS_3             54               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 CLUS_4
  PIK3CA MUTATED       38     23     47     20
  PIK3CA WILD-TYPE     35     20     32     25
D8V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             38               35
  CLUS_2             23               20
  CLUS_3             47               32
  CLUS_4             20               25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       13      8     37
  PIK3CA WILD-TYPE     16     11     27
D8V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             13               16
  CLUS_2              8               11
  CLUS_3             37               27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     27     16
  PIK3CA WILD-TYPE     18     21     15
D8V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             15               18
  CLUS_2             27               21
  CLUS_3             16               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"

Clustering(9) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        5      3      4      5
  ARID1A WILD-TYPE      7     15      7      5
D9V1, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              5                7
  CLUS_2              3               15
  CLUS_3              4                7
  CLUS_4              5                5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        5      0      3      4      5
  ARID1A WILD-TYPE      7     10      4      3     10
D9V2, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              5                7
  CLUS_2              0               10
  CLUS_3              3                4
  CLUS_4              4                3
  CLUS_5              5               10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3     67      2      1      7
  ARID1A WILD-TYPE     53     85      9      4     11
D9V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               53
  CLUS_2             67               85
  CLUS_3              2                9
  CLUS_4              1                4
  CLUS_5              7               11
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     16     20
  ARID1A WILD-TYPE     34     23     33
D9V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9               34
  CLUS_2             16               23
  CLUS_3             20               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 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED       12     13     18      3     18      2
  ARID1A WILD-TYPE     27     23     19      7     22     22
D9V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             12               27
  CLUS_2             13               23
  CLUS_3             18               19
  CLUS_4              3                7
  CLUS_5             18               22
  CLUS_6              2               22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22     24     17      3
  ARID1A WILD-TYPE     43     40     23     14
D9V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             22               43
  CLUS_2             24               40
  CLUS_3             17               23
  CLUS_4              3               14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       17     33     33
  ARID1A WILD-TYPE     62     52     50
D9V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             17               62
  CLUS_2             33               52
  CLUS_3             33               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARID1A MUTATED        3     15      3     13     18      6     25
  ARID1A WILD-TYPE     41     26     14     20     17     25     21
D9V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               41
  CLUS_2             15               26
  CLUS_3              3               14
  CLUS_4             13               20
  CLUS_5             18               17
  CLUS_6              6               25
  CLUS_7             25               21
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       17     24     39
  ARID1A WILD-TYPE     52     55     53
D9V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             17               52
  CLUS_2             24               55
  CLUS_3             39               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
  ARID1A MUTATED       25     14     37      4
  ARID1A WILD-TYPE     48     29     42     41
D9V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             25               48
  CLUS_2             14               29
  CLUS_3             37               42
  CLUS_4              4               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
  ARID1A MUTATED        6      7     27
  ARID1A WILD-TYPE     23     12     37
D9V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              6               23
  CLUS_2              7               12
  CLUS_3             27               37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     22     10
  ARID1A WILD-TYPE     25     26     21
D9V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8               25
  CLUS_2             22               26
  CLUS_3             10               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"

Clustering(10) Variable = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        0      3      4     10
  CTNNB1 WILD-TYPE     12     15      7      0
D10V1, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               12
  CLUS_2              3               15
  CLUS_3              4                7
  CLUS_4             10                0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4      0      1      0     12
  CTNNB1 WILD-TYPE      8     10      6      7      3
D10V2, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4                8
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              0                7
  CLUS_5             12                3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1     58      5      2      6
  CTNNB1 WILD-TYPE     55     94      6      3     12
D10V3, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             58               94
  CLUS_3              5                6
  CLUS_4              2                3
  CLUS_5              6               12
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4     13     20
  CTNNB1 WILD-TYPE     39     26     33
D10V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2             13               26
  CLUS_3             20               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 CLUS_4 CLUS_5 CLUS_6
  CTNNB1 MUTATED        6     10      6      0     32     10
  CTNNB1 WILD-TYPE     33     26     31     10      8     14
D10V5, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              6               33
  CLUS_2             10               26
  CLUS_3              6               31
  CLUS_4              0               10
  CLUS_5             32                8
  CLUS_6             10               14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     32     10      7
  CTNNB1 WILD-TYPE     50     32     30     10
D10V6, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             15               50
  CLUS_2             32               32
  CLUS_3             10               30
  CLUS_4              7               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9     48     17
  CTNNB1 WILD-TYPE     70     37     66
D10V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              9               70
  CLUS_2             48               37
  CLUS_3             17               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
  CTNNB1 MUTATED        0     39      1      7     14     10      3
  CTNNB1 WILD-TYPE     44      2     16     26     21     21     43
D10V8, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               44
  CLUS_2             39                2
  CLUS_3              1               16
  CLUS_4              7               26
  CLUS_5             14               21
  CLUS_6             10               21
  CLUS_7              3               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        5     46     20
  CTNNB1 WILD-TYPE     64     33     72
D10V9, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              5               64
  CLUS_2             46               33
  CLUS_3             20               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20     38     11      2
  CTNNB1 WILD-TYPE     53      5     68     43
D10V10, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             20               53
  CLUS_2             38                5
  CLUS_3             11               68
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      8     17
  CTNNB1 WILD-TYPE     29     11     47
D10V11, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              8               11
  CLUS_3             17               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
  CTNNB1 MUTATED        1     15      9
  CTNNB1 WILD-TYPE     32     33     22
D10V12, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1               32
  CLUS_2             15               33
  CLUS_3              9               22
[1] 3 2
[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 = FGFR2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR2 MUTATED        3      2      1      0
  FGFR2 WILD-TYPE      9     16     10     10
D11V1, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             2              16
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      1      2      1
  FGFR2 WILD-TYPE     10     10      6      5     14
D11V2, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             2               5
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3     22      2      1      2
  FGFR2 WILD-TYPE     53    130      9      4     16
D11V3, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             3              53
  CLUS_2            22             130
  CLUS_3             2               9
  CLUS_4             1               4
  CLUS_5             2              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
  FGFR2 MUTATED        5      5      7
  FGFR2 WILD-TYPE     38     34     46
D11V4, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             5              34
  CLUS_3             7              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 CLUS_4 CLUS_5 CLUS_6
  FGFR2 MUTATED        6      5      6      1      4      3
  FGFR2 WILD-TYPE     33     31     31      9     36     21
D11V5, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             6              33
  CLUS_2             5              31
  CLUS_3             6              31
  CLUS_4             1               9
  CLUS_5             4              36
  CLUS_6             3              21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      8      6      4
  FGFR2 WILD-TYPE     58     56     34     13
D11V6, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             7              58
  CLUS_2             8              56
  CLUS_3             6              34
  CLUS_4             4              13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10     11     10
  FGFR2 WILD-TYPE     69     74     73
D11V7, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            10              69
  CLUS_2            11              74
  CLUS_3            10              73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FGFR2 MUTATED        2      2      2      8      7      3      7
  FGFR2 WILD-TYPE     42     39     15     25     28     28     39
D11V8, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             2              42
  CLUS_2             2              39
  CLUS_3             2              15
  CLUS_4             8              25
  CLUS_5             7              28
  CLUS_6             3              28
  CLUS_7             7              39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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     11     12
  FGFR2 WILD-TYPE     62     68     80
D11V9, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             7              62
  CLUS_2            11              68
  CLUS_3            12              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
  FGFR2 MUTATED       12      1     11      6
  FGFR2 WILD-TYPE     61     42     68     39
D11V10, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            12              61
  CLUS_2             1              42
  CLUS_3            11              68
  CLUS_4             6              39
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      3      6
  FGFR2 WILD-TYPE     23     16     58
D11V11, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             6              23
  CLUS_2             3              16
  CLUS_3             6              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
  FGFR2 MUTATED        4      7      4
  FGFR2 WILD-TYPE     29     41     27
D11V12, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             4              29
  CLUS_2             7              41
  CLUS_3             4              27
[1] 3 2
[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 = ZFHX3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFHX3 MUTATED        6      6      2      2
  ZFHX3 WILD-TYPE      6     12      9      8
D12V1, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             6               6
  CLUS_2             6              12
  CLUS_3             2               9
  CLUS_4             2               8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFHX3 MUTATED        4      2      2      5      3
  ZFHX3 WILD-TYPE      8      8      5      2     12
D12V2, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             4               8
  CLUS_2             2               8
  CLUS_3             2               5
  CLUS_4             5               2
  CLUS_5             3              12
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFHX3 MUTATED        3     34      2      0      3
  ZFHX3 WILD-TYPE     53    118      9      5     15
D12V3, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             3              53
  CLUS_2            34             118
  CLUS_3             2               9
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED        5      1     12
  ZFHX3 WILD-TYPE     38     38     41
D12V4, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              38
  CLUS_3            12              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 CLUS_4 CLUS_5 CLUS_6
  ZFHX3 MUTATED        7     11      5      3      5      4
  ZFHX3 WILD-TYPE     32     25     32      7     35     20
D12V5, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             7              32
  CLUS_2            11              25
  CLUS_3             5              32
  CLUS_4             3               7
  CLUS_5             5              35
  CLUS_6             4              20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFHX3 MUTATED       12     12      7      4
  ZFHX3 WILD-TYPE     53     52     33     13
D12V6, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1            12              53
  CLUS_2            12              52
  CLUS_3             7              33
  CLUS_4             4              13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED       13     17     14
  ZFHX3 WILD-TYPE     66     68     69
D12V7, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1            13              66
  CLUS_2            17              68
  CLUS_3            14              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
  ZFHX3 MUTATED        4      3      2     12     11      4      8
  ZFHX3 WILD-TYPE     40     38     15     21     24     27     38
D12V8, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             4              40
  CLUS_2             3              38
  CLUS_3             2              15
  CLUS_4            12              21
  CLUS_5            11              24
  CLUS_6             4              27
  CLUS_7             8              38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED        7     17     17
  ZFHX3 WILD-TYPE     62     62     75
D12V9, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             7              62
  CLUS_2            17              62
  CLUS_3            17              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
  ZFHX3 MUTATED       19      3     15      4
  ZFHX3 WILD-TYPE     54     40     64     41
D12V10, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1            19              54
  CLUS_2             3              40
  CLUS_3            15              64
  CLUS_4             4              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
  ZFHX3 MUTATED        3      4      8
  ZFHX3 WILD-TYPE     26     15     56
D12V11, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             3              26
  CLUS_2             4              15
  CLUS_3             8              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
  ZFHX3 MUTATED        4      5      6
  ZFHX3 WILD-TYPE     29     43     25
D12V12, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             4              29
  CLUS_2             5              43
  CLUS_3             6              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"

Clustering(13) Variable = TCP11L2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCP11L2 MUTATED        4      2      0      0
  TCP11L2 WILD-TYPE      8     16     11     10
D13V1, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               2                16
  CLUS_3               0                11
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCP11L2 MUTATED        2      0      1      3      0
  TCP11L2 WILD-TYPE     10     10      6      4     15
D13V2, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               2                10
  CLUS_2               0                10
  CLUS_3               1                 6
  CLUS_4               3                 4
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCP11L2 MUTATED        0     12      0      0      2
  TCP11L2 WILD-TYPE     56    140     11      5     16
D13V3, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              12               140
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               2                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
  TCP11L2 MUTATED        1      0      5
  TCP11L2 WILD-TYPE     42     39     48
D13V4, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               0                39
  CLUS_3               5                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 CLUS_4 CLUS_5 CLUS_6
  TCP11L2 MUTATED        2      4      3      2      1      0
  TCP11L2 WILD-TYPE     37     32     34      8     39     24
D13V5, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               2                37
  CLUS_2               4                32
  CLUS_3               3                34
  CLUS_4               2                 8
  CLUS_5               1                39
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCP11L2 MUTATED        3      4      5      0
  TCP11L2 WILD-TYPE     62     60     35     17
D13V6, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               3                62
  CLUS_2               4                60
  CLUS_3               5                35
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TCP11L2 MUTATED        6      6      2
  TCP11L2 WILD-TYPE     73     79     81
D13V7, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               6                73
  CLUS_2               6                79
  CLUS_3               2                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
  TCP11L2 MUTATED        0      0      1      6      6      0      1
  TCP11L2 WILD-TYPE     44     41     16     27     29     31     45
D13V8, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               1                16
  CLUS_4               6                27
  CLUS_5               6                29
  CLUS_6               0                31
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TCP11L2 MUTATED        4      6      3
  TCP11L2 WILD-TYPE     65     73     89
D13V9, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               6                73
  CLUS_3               3                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
  TCP11L2 MUTATED        7      1      3      2
  TCP11L2 WILD-TYPE     66     42     76     43
D13V10, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               7                66
  CLUS_2               1                42
  CLUS_3               3                76
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TCP11L2 MUTATED        1      1      2
  TCP11L2 WILD-TYPE     28     18     62
D13V11, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               1                18
  CLUS_3               2                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
  TCP11L2 MUTATED        2      1      1
  TCP11L2 WILD-TYPE     31     47     30
D13V12, multiclass
        clus
vv       TCP11L2 MUTATED TCP11L2 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               1                47
  CLUS_3               1                30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = SPOP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPOP MUTATED        2      1      0      2
  SPOP WILD-TYPE     10     17     11      8
D14V1, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            2              8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPOP MUTATED        0      1      1      1      2
  SPOP WILD-TYPE     12      9      6      6     13
D14V2, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            0             12
  CLUS_2            1              9
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            2             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 CLUS_4 CLUS_5
  SPOP MUTATED        3     15      1      1      1
  SPOP WILD-TYPE     53    137     10      4     17
D14V3, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            3             53
  CLUS_2           15            137
  CLUS_3            1             10
  CLUS_4            1              4
  CLUS_5            1             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
  SPOP MUTATED        4      1      5
  SPOP WILD-TYPE     39     38     48
D14V4, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             38
  CLUS_3            5             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 CLUS_4 CLUS_5 CLUS_6
  SPOP MUTATED        5      3      2      1      3      1
  SPOP WILD-TYPE     34     33     35      9     37     23
D14V5, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            5             34
  CLUS_2            3             33
  CLUS_3            2             35
  CLUS_4            1              9
  CLUS_5            3             37
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPOP MUTATED        4      6      4      1
  SPOP WILD-TYPE     61     58     36     16
D14V6, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            4             61
  CLUS_2            6             58
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        6     10      5
  SPOP WILD-TYPE     73     75     78
D14V7, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            6             73
  CLUS_2           10             75
  CLUS_3            5             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
  SPOP MUTATED        2      1      2      4      7      1      4
  SPOP WILD-TYPE     42     40     15     29     28     30     42
D14V8, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            2             42
  CLUS_2            1             40
  CLUS_3            2             15
  CLUS_4            4             29
  CLUS_5            7             28
  CLUS_6            1             30
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        7      7      7
  SPOP WILD-TYPE     62     72     85
D14V9, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            7             62
  CLUS_2            7             72
  CLUS_3            7             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
  SPOP MUTATED        9      5      4      3
  SPOP WILD-TYPE     64     38     75     42
D14V10, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            9             64
  CLUS_2            5             38
  CLUS_3            4             75
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        3      3      2
  SPOP WILD-TYPE     26     16     62
D14V11, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            3             26
  CLUS_2            3             16
  CLUS_3            2             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
  SPOP MUTATED        4      3      1
  SPOP WILD-TYPE     29     45     30
D14V12, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            4             29
  CLUS_2            3             45
  CLUS_3            1             30
[1] 3 2
[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 = RBMX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBMX MUTATED        3      2      0      0
  RBMX WILD-TYPE      9     16     11     10
D15V1, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            3              9
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      1      2      0
  RBMX WILD-TYPE     10     10      6      5     15
D15V2, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            2              5
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     12      0      0      0
  RBMX WILD-TYPE     56    140     11      5     18
D15V3, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0             56
  CLUS_2           12            140
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            0             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
  RBMX MUTATED        1      0      3
  RBMX WILD-TYPE     42     39     50
D15V4, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1             42
  CLUS_2            0             39
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      3      3      3      0      1
  RBMX WILD-TYPE     38     33     34      7     40     23
D15V5, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            3             34
  CLUS_4            3              7
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      3      4      1
  RBMX WILD-TYPE     62     61     36     16
D15V6, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            3             62
  CLUS_2            3             61
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      7      3
  RBMX WILD-TYPE     76     78     80
D15V7, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            3             76
  CLUS_2            7             78
  CLUS_3            3             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
  RBMX MUTATED        1      0      1      6      2      1      2
  RBMX WILD-TYPE     43     41     16     27     33     30     44
D15V8, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1             43
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            6             27
  CLUS_5            2             33
  CLUS_6            1             30
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      5      5
  RBMX WILD-TYPE     66     74     87
D15V9, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             74
  CLUS_3            5             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
  RBMX MUTATED       10      0      3      0
  RBMX WILD-TYPE     63     43     76     45
D15V10, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1           10             63
  CLUS_2            0             43
  CLUS_3            3             76
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      1      2
  RBMX WILD-TYPE     29     18     62
D15V11, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0             29
  CLUS_2            1             18
  CLUS_3            2             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
  RBMX MUTATED        1      1      1
  RBMX WILD-TYPE     32     47     30
D15V12, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1             32
  CLUS_2            1             47
  CLUS_3            1             30
[1] 3 2
[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 = SOX17 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX17 MUTATED        0      1      1      0
  SOX17 WILD-TYPE     12     17     10     10
D16V1, multiclass
[1] "Remove cluster labels:" "SOX17 MUTATED"         
clus
  SOX17 MUTATED SOX17 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A0L8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BK-A0CC 
"SOX17 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX17 MUTATED        2      0      0      0      0
  SOX17 WILD-TYPE     10     10      7      7     15
D16V2, multiclass
[1] "Remove cluster labels:" "SOX17 MUTATED"         
clus
  SOX17 MUTATED SOX17 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A0L8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BK-A0CC 
"SOX17 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOX17 MUTATED        0      4      1      1      1
  SOX17 WILD-TYPE     56    148     10      4     17
D16V3, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             4             148
  CLUS_3             1              10
  CLUS_4             1               4
  CLUS_5             1              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
  SOX17 MUTATED        0      3      1
  SOX17 WILD-TYPE     43     36     52
D16V4, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             3              36
  CLUS_3             1              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
  SOX17 MUTATED        2      0      3      0      1      0
  SOX17 WILD-TYPE     37     36     34     10     39     24
D16V5, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              36
  CLUS_3             3              34
  CLUS_4             0              10
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX17 MUTATED        1      5      0      0
  SOX17 WILD-TYPE     64     59     40     17
D16V6, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5              59
  CLUS_3             0              40
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SOX17 MUTATED        1      1      5
  SOX17 WILD-TYPE     78     84     78
D16V7, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             1              78
  CLUS_2             1              84
  CLUS_3             5              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
  SOX17 MUTATED        1      0      0      0      2      1      3
  SOX17 WILD-TYPE     43     41     17     33     33     30     43
D16V8, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             0              33
  CLUS_5             2              33
  CLUS_6             1              30
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SOX17 MUTATED        1      3      3
  SOX17 WILD-TYPE     68     76     89
D16V9, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              76
  CLUS_3             3              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
  SOX17 MUTATED        2      1      4      0
  SOX17 WILD-TYPE     71     42     75     45
D16V10, multiclass
        clus
vv       SOX17 MUTATED SOX17 WILD-TYPE
  CLUS_1             2              71
  CLUS_2             1              42
  CLUS_3             4              75
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SOX17 MUTATED        0      1      1
  SOX17 WILD-TYPE     29     18     63
D16V11, multiclass
[1] "Remove cluster labels:" "SOX17 MUTATED"         
clus
  SOX17 MUTATED SOX17 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18B 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BS-A0T9      TCGA-BS-A0UA      TCGA-BS-A0V6 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN      TCGA-D1-A0ZO 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102      TCGA-D1-A15V 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160      TCGA-D1-A161 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SOX17 MUTATED        0      2      0
  SOX17 WILD-TYPE     33     46     31
D16V12, multiclass
[1] "Remove cluster labels:" "SOX17 MUTATED"         
clus
  SOX17 MUTATED SOX17 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18B 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BS-A0T9      TCGA-BS-A0UA      TCGA-BS-A0V6 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN      TCGA-D1-A0ZO 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102      TCGA-D1-A15V 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160      TCGA-D1-A161 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"SOX17 WILD-TYPE" "SOX17 WILD-TYPE" 

Clustering(17) Variable = NFE2L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        0      1      3      0
  NFE2L2 WILD-TYPE     12     17      8     10
D17V1, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               12
  CLUS_2              1               17
  CLUS_3              3                8
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFE2L2 MUTATED        1      0      2      0      1
  NFE2L2 WILD-TYPE     11     10      5      7     14
D17V2, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              0                7
  CLUS_5              1               14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFE2L2 MUTATED        0     10      2      0      3
  NFE2L2 WILD-TYPE     56    142      9      5     15
D17V3, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             10              142
  CLUS_3              2                9
  CLUS_4              0                5
  CLUS_5              3               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      3      3
  NFE2L2 WILD-TYPE     42     36     50
D17V4, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              3               36
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFE2L2 MUTATED        3      2      4      2      0      2
  NFE2L2 WILD-TYPE     36     34     33      8     40     22
D17V5, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              2               34
  CLUS_3              4               33
  CLUS_4              2                8
  CLUS_5              0               40
  CLUS_6              2               22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        3      3      6      1
  NFE2L2 WILD-TYPE     62     61     34     16
D17V6, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3               61
  CLUS_3              6               34
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        2      2     11
  NFE2L2 WILD-TYPE     77     83     72
D17V7, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              2               83
  CLUS_3             11               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NFE2L2 MUTATED        0      0      3      2      1      3      6
  NFE2L2 WILD-TYPE     44     41     14     31     34     28     40
D17V8, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              3               14
  CLUS_4              2               31
  CLUS_5              1               34
  CLUS_6              3               28
  CLUS_7              6               40
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        4      2      9
  NFE2L2 WILD-TYPE     65     77     83
D17V9, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               77
  CLUS_3              9               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
  NFE2L2 MUTATED        5      0      9      1
  NFE2L2 WILD-TYPE     68     43     70     44
D17V10, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              0               43
  CLUS_3              9               70
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        0      1      5
  NFE2L2 WILD-TYPE     29     18     59
D17V11, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              1               18
  CLUS_3              5               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
  NFE2L2 MUTATED        1      4      1
  NFE2L2 WILD-TYPE     32     44     30
D17V12, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              4               44
  CLUS_3              1               30
[1] 3 2
[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 = CCND1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCND1 MUTATED        2      1      0      1
  CCND1 WILD-TYPE     10     17     11      9
D18V1, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             1               9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCND1 MUTATED        1      0      1      1      1
  CCND1 WILD-TYPE     11     10      6      6     14
D18V2, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCND1 MUTATED        0     13      0      0      1
  CCND1 WILD-TYPE     56    139     11      5     17
D18V3, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            13             139
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  CCND1 MUTATED        1      1      5
  CCND1 WILD-TYPE     42     38     48
D18V4, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  CCND1 MUTATED        4      3      1      0      1      1
  CCND1 WILD-TYPE     35     33     36     10     39     23
D18V5, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             3              33
  CLUS_3             1              36
  CLUS_4             0              10
  CLUS_5             1              39
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCND1 MUTATED        3      4      2      1
  CCND1 WILD-TYPE     62     60     38     16
D18V6, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             4              60
  CLUS_3             2              38
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        3      7      4
  CCND1 WILD-TYPE     76     78     79
D18V7, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             7              78
  CLUS_3             4              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
  CCND1 MUTATED        0      1      0      5      4      1      3
  CCND1 WILD-TYPE     44     40     17     28     31     30     43
D18V8, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             0              17
  CLUS_4             5              28
  CLUS_5             4              31
  CLUS_6             1              30
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        1      8      5
  CCND1 WILD-TYPE     68     71     87
D18V9, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             8              71
  CLUS_3             5              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
  CCND1 MUTATED        6      2      5      1
  CCND1 WILD-TYPE     67     41     74     44
D18V10, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             2              41
  CLUS_3             5              74
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        0      1      3
  CCND1 WILD-TYPE     29     18     61
D18V11, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             3              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
  CCND1 MUTATED        0      3      1
  CCND1 WILD-TYPE     33     45     30
D18V12, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             0              33
  CLUS_2             3              45
  CLUS_3             1              30
[1] 3 2
[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 = GNPTAB MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNPTAB MUTATED        1      3      0      0
  GNPTAB WILD-TYPE     11     15     11     10
D19V1, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              1               11
  CLUS_2              3               15
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNPTAB MUTATED        3      0      1      0      0
  GNPTAB WILD-TYPE      9     10      6      7     15
D19V2, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              3                9
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GNPTAB MUTATED        1     16      0      0      3
  GNPTAB WILD-TYPE     55    136     11      5     15
D19V3, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              1               55
  CLUS_2             16              136
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              3               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GNPTAB MUTATED        3      1      8
  GNPTAB WILD-TYPE     40     38     45
D19V4, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               38
  CLUS_3              8               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 CLUS_4 CLUS_5 CLUS_6
  GNPTAB MUTATED        5      5      4      1      1      1
  GNPTAB WILD-TYPE     34     31     33      9     39     23
D19V5, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              5               34
  CLUS_2              5               31
  CLUS_3              4               33
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GNPTAB MUTATED        5      7      4      1
  GNPTAB WILD-TYPE     60     57     36     16
D19V6, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              5               60
  CLUS_2              7               57
  CLUS_3              4               36
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GNPTAB MUTATED        9      8      3
  GNPTAB WILD-TYPE     70     77     80
D19V7, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              9               70
  CLUS_2              8               77
  CLUS_3              3               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
  GNPTAB MUTATED        1      1      1      7      8      1      1
  GNPTAB WILD-TYPE     43     40     16     26     27     30     45
D19V8, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              1               43
  CLUS_2              1               40
  CLUS_3              1               16
  CLUS_4              7               26
  CLUS_5              8               27
  CLUS_6              1               30
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GNPTAB MUTATED        6      7      6
  GNPTAB WILD-TYPE     63     72     86
D19V9, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              6               63
  CLUS_2              7               72
  CLUS_3              6               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
  GNPTAB MUTATED       10      2      4      3
  GNPTAB WILD-TYPE     63     41     75     42
D19V10, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1             10               63
  CLUS_2              2               41
  CLUS_3              4               75
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GNPTAB MUTATED        3      2      4
  GNPTAB WILD-TYPE     26     17     60
D19V11, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              3               26
  CLUS_2              2               17
  CLUS_3              4               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
  GNPTAB MUTATED        4      2      3
  GNPTAB WILD-TYPE     29     46     28
D19V12, multiclass
        clus
vv       GNPTAB MUTATED GNPTAB WILD-TYPE
  CLUS_1              4               29
  CLUS_2              2               46
  CLUS_3              3               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"

Clustering(20) Variable = ARID5B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID5B MUTATED        3      3      2      2
  ARID5B WILD-TYPE      9     15      9      8
D20V1, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              3                9
  CLUS_2              3               15
  CLUS_3              2                9
  CLUS_4              2                8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID5B MUTATED        4      0      3      1      2
  ARID5B WILD-TYPE      8     10      4      6     13
D20V2, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              4                8
  CLUS_2              0               10
  CLUS_3              3                4
  CLUS_4              1                6
  CLUS_5              2               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 CLUS_4 CLUS_5
  ARID5B MUTATED        0     25      1      0      2
  ARID5B WILD-TYPE     56    127     10      5     16
D20V3, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              0               56
  CLUS_2             25              127
  CLUS_3              1               10
  CLUS_4              0                5
  CLUS_5              2               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
  ARID5B MUTATED        1      1      6
  ARID5B WILD-TYPE     42     38     47
D20V4, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              6               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 CLUS_4 CLUS_5 CLUS_6
  ARID5B MUTATED        4      5      5      4      3      3
  ARID5B WILD-TYPE     35     31     32      6     37     21
D20V5, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              4               35
  CLUS_2              5               31
  CLUS_3              5               32
  CLUS_4              4                6
  CLUS_5              3               37
  CLUS_6              3               21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID5B MUTATED        4     10      7      3
  ARID5B WILD-TYPE     61     54     33     14
D20V6, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              4               61
  CLUS_2             10               54
  CLUS_3              7               33
  CLUS_4              3               14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        5     13     11
  ARID5B WILD-TYPE     74     72     72
D20V7, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              5               74
  CLUS_2             13               72
  CLUS_3             11               72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARID5B MUTATED        1      2      1      7      7      5      6
  ARID5B WILD-TYPE     43     39     16     26     28     26     40
D20V8, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1               43
  CLUS_2              2               39
  CLUS_3              1               16
  CLUS_4              7               26
  CLUS_5              7               28
  CLUS_6              5               26
  CLUS_7              6               40
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        5      7     15
  ARID5B WILD-TYPE     64     72     77
D20V9, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              5               64
  CLUS_2              7               72
  CLUS_3             15               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
  ARID5B MUTATED       11      4     11      1
  ARID5B WILD-TYPE     62     39     68     44
D20V10, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1             11               62
  CLUS_2              4               39
  CLUS_3             11               68
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        0      2      4
  ARID5B WILD-TYPE     29     17     60
D20V11, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              0               29
  CLUS_2              2               17
  CLUS_3              4               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
  ARID5B MUTATED        1      4      1
  ARID5B WILD-TYPE     32     44     30
D20V12, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1               32
  CLUS_2              4               44
  CLUS_3              1               30
[1] 3 2
[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 = DNER MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNER MUTATED        3      2      0      0
  DNER WILD-TYPE      9     16     11     10
D21V1, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            3              9
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNER MUTATED        2      0      2      1      0
  DNER WILD-TYPE     10     10      5      6     15
D21V2, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNER MUTATED        0     15      0      0      3
  DNER WILD-TYPE     56    137     11      5     15
D21V3, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            0             56
  CLUS_2           15            137
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        3      1      4
  DNER WILD-TYPE     40     38     49
D21V4, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             38
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  DNER MUTATED        4      4      4      3      0      0
  DNER WILD-TYPE     35     32     33      7     40     24
D21V5, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            4             35
  CLUS_2            4             32
  CLUS_3            4             33
  CLUS_4            3              7
  CLUS_5            0             40
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNER MUTATED        4      5      6      0
  DNER WILD-TYPE     61     59     34     17
D21V6, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            4             61
  CLUS_2            5             59
  CLUS_3            6             34
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        6      7      5
  DNER WILD-TYPE     73     78     78
D21V7, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            6             73
  CLUS_2            7             78
  CLUS_3            5             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
  DNER MUTATED        0      0      2      5      7      0      4
  DNER WILD-TYPE     44     41     15     28     28     31     42
D21V8, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            2             15
  CLUS_4            5             28
  CLUS_5            7             28
  CLUS_6            0             31
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        6      6      5
  DNER WILD-TYPE     63     73     87
D21V9, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            6             63
  CLUS_2            6             73
  CLUS_3            5             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
  DNER MUTATED        7      1      6      3
  DNER WILD-TYPE     66     42     73     42
D21V10, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            7             66
  CLUS_2            1             42
  CLUS_3            6             73
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        1      1      5
  DNER WILD-TYPE     28     18     59
D21V11, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            1             28
  CLUS_2            1             18
  CLUS_3            5             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
  DNER MUTATED        1      3      3
  DNER WILD-TYPE     32     45     28
D21V12, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            1             32
  CLUS_2            3             45
  CLUS_3            3             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"

Clustering(22) Variable = EP300 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EP300 MUTATED        1      1      1      0
  EP300 WILD-TYPE     11     17     10     10
D22V1, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             1              17
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      1      0      1
  EP300 WILD-TYPE     11     10      6      7     14
D22V2, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             0               7
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     18      0      1      2
  EP300 WILD-TYPE     56    134     11      4     16
D22V3, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            18             134
  CLUS_3             0              11
  CLUS_4             1               4
  CLUS_5             2              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
  EP300 MUTATED        1      2      6
  EP300 WILD-TYPE     42     37     47
D22V4, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              37
  CLUS_3             6              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 CLUS_4 CLUS_5 CLUS_6
  EP300 MUTATED        5      7      3      2      3      0
  EP300 WILD-TYPE     34     29     34      8     37     24
D22V5, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             5              34
  CLUS_2             7              29
  CLUS_3             3              34
  CLUS_4             2               8
  CLUS_5             3              37
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      7      5      0
  EP300 WILD-TYPE     57     57     35     17
D22V6, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             8              57
  CLUS_2             7              57
  CLUS_3             5              35
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      9      7
  EP300 WILD-TYPE     75     76     76
D22V7, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             9              76
  CLUS_3             7              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
  EP300 MUTATED        0      2      2      6      5      1      4
  EP300 WILD-TYPE     44     39     15     27     30     30     42
D22V8, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             2              39
  CLUS_3             2              15
  CLUS_4             6              27
  CLUS_5             5              30
  CLUS_6             1              30
  CLUS_7             4              42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        5      9      7
  EP300 WILD-TYPE     64     70     85
D22V9, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             9              70
  CLUS_3             7              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
  EP300 MUTATED        8      3      9      1
  EP300 WILD-TYPE     65     40     70     44
D22V10, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             8              65
  CLUS_2             3              40
  CLUS_3             9              70
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      1      5
  EP300 WILD-TYPE     29     18     59
D22V11, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             5              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
  EP300 MUTATED        2      1      3
  EP300 WILD-TYPE     31     47     28
D22V12, multiclass
        clus
vv       EP300 MUTATED EP300 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             3              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"

Clustering(23) Variable = MAX MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAX MUTATED        1      0      0      0
  MAX WILD-TYPE     11     18     11     10
D23V1, multiclass
[1] "Remove cluster labels:" "MAX MUTATED"           
clus
  MAX MUTATED MAX WILD-TYPE 
            1            50 
   TCGA-A5-A0G3    TCGA-A5-A0G5    TCGA-A5-A0GA    TCGA-A5-A0GB    TCGA-A5-A0GE 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-A5-A0GH    TCGA-A5-A0GM    TCGA-A5-A0GP    TCGA-A5-A0GU    TCGA-AP-A051 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A052    TCGA-AP-A053    TCGA-AP-A054    TCGA-AP-A056    TCGA-AP-A05A 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A05D    TCGA-AP-A05H    TCGA-AP-A05J    TCGA-AP-A05N    TCGA-AP-A05P 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A0L8    TCGA-AP-A0L9    TCGA-AP-A0LD    TCGA-AP-A0LG    TCGA-AP-A0LH 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A0LJ    TCGA-AP-A0LN    TCGA-AP-A0LT    TCGA-AP-A0LV    TCGA-AX-A05S 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AX-A05T    TCGA-AX-A05U    TCGA-AX-A05W    TCGA-AX-A05Y    TCGA-AX-A05Z 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AX-A060    TCGA-AX-A062    TCGA-AX-A064    TCGA-AX-A06B    TCGA-AX-A0IW 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AX-A0J1    TCGA-B5-A0JR    TCGA-B5-A0JZ    TCGA-B5-A0K0    TCGA-B5-A0K1 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-B5-A0K4    TCGA-BG-A0LW    TCGA-BG-A0MI    TCGA-BK-A0C9    TCGA-BK-A0CC 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAX MUTATED        0      0      0      1      0
  MAX WILD-TYPE     12     10      7      6     15
D23V2, multiclass
[1] "Remove cluster labels:" "MAX MUTATED"           
clus
  MAX MUTATED MAX WILD-TYPE 
            1            50 
   TCGA-A5-A0G3    TCGA-A5-A0G5    TCGA-A5-A0GA    TCGA-A5-A0GB    TCGA-A5-A0GE 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-A5-A0GH    TCGA-A5-A0GM    TCGA-A5-A0GP    TCGA-A5-A0GU    TCGA-AP-A051 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A052    TCGA-AP-A053    TCGA-AP-A054    TCGA-AP-A056    TCGA-AP-A05A 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A05D    TCGA-AP-A05H    TCGA-AP-A05J    TCGA-AP-A05N    TCGA-AP-A05P 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A0L8    TCGA-AP-A0L9    TCGA-AP-A0LD    TCGA-AP-A0LG    TCGA-AP-A0LH 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AP-A0LJ    TCGA-AP-A0LN    TCGA-AP-A0LT    TCGA-AP-A0LV    TCGA-AX-A05S 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AX-A05T    TCGA-AX-A05U    TCGA-AX-A05W    TCGA-AX-A05Y    TCGA-AX-A05Z 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AX-A060    TCGA-AX-A062    TCGA-AX-A064    TCGA-AX-A06B    TCGA-AX-A0IW 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-AX-A0J1    TCGA-B5-A0JR    TCGA-B5-A0JZ    TCGA-B5-A0K0    TCGA-B5-A0K1 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
   TCGA-B5-A0K4    TCGA-BG-A0LW    TCGA-BG-A0MI    TCGA-BK-A0C9    TCGA-BK-A0CC 
"MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" "MAX WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MAX MUTATED        0      9      0      0      2
  MAX WILD-TYPE     56    143     11      5     16
D23V3, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           0            56
  CLUS_2           9           143
  CLUS_3           0            11
  CLUS_4           0             5
  CLUS_5           2            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
  MAX MUTATED        1      3      3
  MAX WILD-TYPE     42     36     50
D23V4, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           1            42
  CLUS_2           3            36
  CLUS_3           3            50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MAX MUTATED        3      3      2      0      1      0
  MAX WILD-TYPE     36     33     35     10     39     24
D23V5, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           3            36
  CLUS_2           3            33
  CLUS_3           2            35
  CLUS_4           0            10
  CLUS_5           1            39
  CLUS_6           0            24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAX MUTATED        3      4      2      0
  MAX WILD-TYPE     62     60     38     17
D23V6, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           3            62
  CLUS_2           4            60
  CLUS_3           2            38
  CLUS_4           0            17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAX MUTATED        5      4      2
  MAX WILD-TYPE     74     81     81
D23V7, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           5            74
  CLUS_2           4            81
  CLUS_3           2            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
  MAX MUTATED        0      1      1      2      5      0      2
  MAX WILD-TYPE     44     40     16     31     30     31     44
D23V8, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           0            44
  CLUS_2           1            40
  CLUS_3           1            16
  CLUS_4           2            31
  CLUS_5           5            30
  CLUS_6           0            31
  CLUS_7           2            44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAX MUTATED        3      4      4
  MAX WILD-TYPE     66     75     88
D23V9, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           3            66
  CLUS_2           4            75
  CLUS_3           4            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
  MAX MUTATED        4      2      4      1
  MAX WILD-TYPE     69     41     75     44
D23V10, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           4            69
  CLUS_2           2            41
  CLUS_3           4            75
  CLUS_4           1            44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MAX MUTATED        1      2      2
  MAX WILD-TYPE     28     17     62
D23V11, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           1            28
  CLUS_2           2            17
  CLUS_3           2            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
  MAX MUTATED        3      1      1
  MAX WILD-TYPE     30     47     30
D23V12, multiclass
        clus
vv       MAX MUTATED MAX WILD-TYPE
  CLUS_1           3            30
  CLUS_2           1            47
  CLUS_3           1            30
[1] 3 2
[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 = SGK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK1 MUTATED        2      1      0      0
  SGK1 WILD-TYPE     10     17     11     10
D24V1, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK1 MUTATED        1      0      1      1      0
  SGK1 WILD-TYPE     11     10      6      6     15
D24V2, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK1 MUTATED        1     10      1      1      2
  SGK1 WILD-TYPE     55    142     10      4     16
D24V3, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             55
  CLUS_2           10            142
  CLUS_3            1             10
  CLUS_4            1              4
  CLUS_5            2             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
  SGK1 MUTATED        1      1      3
  SGK1 WILD-TYPE     42     38     50
D24V4, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            1             38
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SGK1 MUTATED        4      5      1      2      1      2
  SGK1 WILD-TYPE     35     31     36      8     39     22
D24V5, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            5             31
  CLUS_3            1             36
  CLUS_4            2              8
  CLUS_5            1             39
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK1 MUTATED        6      5      3      1
  SGK1 WILD-TYPE     59     59     37     16
D24V6, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            6             59
  CLUS_2            5             59
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        4      8      3
  SGK1 WILD-TYPE     75     77     80
D24V7, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            8             77
  CLUS_3            3             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
  SGK1 MUTATED        0      3      2      2      4      1      3
  SGK1 WILD-TYPE     44     38     15     31     31     30     43
D24V8, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            3             38
  CLUS_3            2             15
  CLUS_4            2             31
  CLUS_5            4             31
  CLUS_6            1             30
  CLUS_7            3             43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        2      7      5
  SGK1 WILD-TYPE     67     72     87
D24V9, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            7             72
  CLUS_3            5             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
  SGK1 MUTATED        7      3      3      1
  SGK1 WILD-TYPE     66     40     76     44
D24V10, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            7             66
  CLUS_2            3             40
  CLUS_3            3             76
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        0      1      2
  SGK1 WILD-TYPE     29     18     62
D24V11, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            1             18
  CLUS_3            2             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
  SGK1 MUTATED        1      2      0
  SGK1 WILD-TYPE     32     46     31
D24V12, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            2             46
  CLUS_3            0             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"

Clustering(25) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      2      0      0
  NRAS WILD-TYPE     12     16     11     10
D25V1, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GM     TCGA-A5-A0GP     TCGA-A5-A0GU 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A0CC 
"NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        1      1      0      0      0
  NRAS WILD-TYPE     11      9      7      7     15
D25V2, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GM     TCGA-A5-A0GP     TCGA-A5-A0GU 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A0CC 
"NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        1      7      0      0      1
  NRAS WILD-TYPE     55    145     11      5     17
D25V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             55
  CLUS_2            7            145
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  NRAS MUTATED        0      0      2
  NRAS WILD-TYPE     43     39     51
D25V4, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A0IS     TCGA-AX-A1C7     TCGA-AX-A1C8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JT 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F     TCGA-B5-A11G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J     TCGA-B5-A11M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V     TCGA-B5-A11W 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z     TCGA-B5-A121 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT     TCGA-BG-A0VV 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ     TCGA-BG-A0W1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV     TCGA-BG-A186 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5     TCGA-BS-A0U9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6     TCGA-BS-A0V7 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17H     TCGA-D1-A17K 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N     TCGA-D1-A17Q 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-FI-A2F8 
"NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        0      2      0      0      2      2
  NRAS WILD-TYPE     39     34     37     10     38     22
D25V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             39
  CLUS_2            2             34
  CLUS_3            0             37
  CLUS_4            0             10
  CLUS_5            2             38
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      2      0      2
  NRAS WILD-TYPE     63     62     40     15
D25V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2             62
  CLUS_3            0             40
  CLUS_4            2             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      3      2
  NRAS WILD-TYPE     75     82     81
D25V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            4             75
  CLUS_2            3             82
  CLUS_3            2             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
  NRAS MUTATED        1      2      1      1      2      0      2
  NRAS WILD-TYPE     43     39     16     32     33     31     44
D25V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             43
  CLUS_2            2             39
  CLUS_3            1             16
  CLUS_4            1             32
  CLUS_5            2             33
  CLUS_6            0             31
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      3
  NRAS WILD-TYPE     66     76     89
D25V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             76
  CLUS_3            3             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
  NRAS MUTATED        3      1      4      1
  NRAS WILD-TYPE     70     42     75     44
D25V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             70
  CLUS_2            1             42
  CLUS_3            4             75
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      0      1
  NRAS WILD-TYPE     29     19     63
D25V11, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZN     TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      1      0
  NRAS WILD-TYPE     33     47     31
D25V12, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZN     TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 

Clustering(26) Variable = KLHL8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLHL8 MUTATED        2      1      0      0
  KLHL8 WILD-TYPE     10     17     11     10
D26V1, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLHL8 MUTATED        1      0      1      1      0
  KLHL8 WILD-TYPE     11     10      6      6     15
D26V2, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLHL8 MUTATED        0     10      0      0      2
  KLHL8 WILD-TYPE     56    142     11      5     16
D26V3, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  KLHL8 MUTATED        1      1      4
  KLHL8 WILD-TYPE     42     38     49
D26V4, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              38
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  KLHL8 MUTATED        2      2      4      0      1      1
  KLHL8 WILD-TYPE     37     34     33     10     39     23
D26V5, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             2              34
  CLUS_3             4              33
  CLUS_4             0              10
  CLUS_5             1              39
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLHL8 MUTATED        2      4      3      1
  KLHL8 WILD-TYPE     63     60     37     16
D26V6, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4              60
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL8 MUTATED        3      7      2
  KLHL8 WILD-TYPE     76     78     81
D26V7, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             7              78
  CLUS_3             2              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
  KLHL8 MUTATED        0      1      1      6      3      0      1
  KLHL8 WILD-TYPE     44     40     16     27     32     31     45
D26V8, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             6              27
  CLUS_5             3              32
  CLUS_6             0              31
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL8 MUTATED        3      6      3
  KLHL8 WILD-TYPE     66     73     89
D26V9, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              73
  CLUS_3             3              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
  KLHL8 MUTATED        4      2      3      3
  KLHL8 WILD-TYPE     69     41     76     42
D26V10, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             2              41
  CLUS_3             3              76
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL8 MUTATED        0      1      4
  KLHL8 WILD-TYPE     29     18     60
D26V11, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             4              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
  KLHL8 MUTATED        2      2      1
  KLHL8 WILD-TYPE     31     46     30
D26V12, multiclass
        clus
vv       KLHL8 MUTATED KLHL8 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             2              46
  CLUS_3             1              30
[1] 3 2
[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 = MORC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC4 MUTATED        1      3      0      1
  MORC4 WILD-TYPE     11     15     11      9
D27V1, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             3              15
  CLUS_3             0              11
  CLUS_4             1               9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC4 MUTATED        2      1      1      0      1
  MORC4 WILD-TYPE     10      9      6      7     14
D27V2, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1               9
  CLUS_3             1               6
  CLUS_4             0               7
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC4 MUTATED        1     17      0      1      1
  MORC4 WILD-TYPE     55    135     11      4     17
D27V3, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            17             135
  CLUS_3             0              11
  CLUS_4             1               4
  CLUS_5             1              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
  MORC4 MUTATED        2      5      5
  MORC4 WILD-TYPE     41     34     48
D27V4, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             5              34
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  MORC4 MUTATED        6      5      1      1      4      0
  MORC4 WILD-TYPE     33     31     36      9     36     24
D27V5, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             6              33
  CLUS_2             5              31
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             4              36
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC4 MUTATED        9      5      3      0
  MORC4 WILD-TYPE     56     59     37     17
D27V6, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             9              56
  CLUS_2             5              59
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        7     10      3
  MORC4 WILD-TYPE     72     75     80
D27V7, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             7              72
  CLUS_2            10              75
  CLUS_3             3              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
  MORC4 MUTATED        1      4      1      6      5      2      1
  MORC4 WILD-TYPE     43     37     16     27     30     29     45
D27V8, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             4              37
  CLUS_3             1              16
  CLUS_4             6              27
  CLUS_5             5              30
  CLUS_6             2              29
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        3     12      4
  MORC4 WILD-TYPE     66     67     88
D27V9, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2            12              67
  CLUS_3             4              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
  MORC4 MUTATED       10      4      3      2
  MORC4 WILD-TYPE     63     39     76     43
D27V10, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1            10              63
  CLUS_2             4              39
  CLUS_3             3              76
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        0      4      5
  MORC4 WILD-TYPE     29     15     59
D27V11, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             4              15
  CLUS_3             5              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
  MORC4 MUTATED        1      4      4
  MORC4 WILD-TYPE     32     44     27
D27V12, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             4              44
  CLUS_3             4              27
[1] 3 2
[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 = ZNF781 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF781 MUTATED        1      1      0      0
  ZNF781 WILD-TYPE     11     17     11     10
D28V1, multiclass
[1] "Remove cluster labels:" "ZNF781 MUTATED"        
clus
  ZNF781 MUTATED ZNF781 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF781 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF781 MUTATED        1      0      1      0      0
  ZNF781 WILD-TYPE     11     10      6      7     15
D28V2, multiclass
[1] "Remove cluster labels:" "ZNF781 MUTATED"        
clus
  ZNF781 MUTATED ZNF781 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" "ZNF781 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF781 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF781 MUTATED        0     10      0      0      0
  ZNF781 WILD-TYPE     56    142     11      5     18
D28V3, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             10              142
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  ZNF781 MUTATED        1      2      3
  ZNF781 WILD-TYPE     42     37     50
D28V4, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               37
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF781 MUTATED        3      2      2      1      1      1
  ZNF781 WILD-TYPE     36     34     35      9     39     23
D28V5, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              2               34
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF781 MUTATED        4      3      2      1
  ZNF781 WILD-TYPE     61     61     38     16
D28V6, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              3               61
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF781 MUTATED        3      5      2
  ZNF781 WILD-TYPE     76     80     81
D28V7, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              5               80
  CLUS_3              2               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
  ZNF781 MUTATED        1      0      0      5      3      0      1
  ZNF781 WILD-TYPE     43     41     17     28     32     31     45
D28V8, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              5               28
  CLUS_5              3               32
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF781 MUTATED        1      4      4
  ZNF781 WILD-TYPE     68     75     88
D28V9, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               75
  CLUS_3              4               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
  ZNF781 MUTATED        5      1      2      1
  ZNF781 WILD-TYPE     68     42     77     44
D28V10, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              2               77
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF781 MUTATED        1      1      3
  ZNF781 WILD-TYPE     28     18     61
D28V11, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              3               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
  ZNF781 MUTATED        1      1      3
  ZNF781 WILD-TYPE     32     47     28
D28V12, multiclass
        clus
vv       ZNF781 MUTATED ZNF781 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              1               47
  CLUS_3              3               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"

Clustering(29) Variable = MKI67 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MKI67 MUTATED        6      4      0      1
  MKI67 WILD-TYPE      6     14     11      9
D29V1, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             6               6
  CLUS_2             4              14
  CLUS_3             0              11
  CLUS_4             1               9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      4      1
  MKI67 WILD-TYPE      8     10      5      3     14
D29V2, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             4               8
  CLUS_2             0              10
  CLUS_3             2               5
  CLUS_4             4               3
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     26      0      0      3
  MKI67 WILD-TYPE     56    126     11      5     15
D29V3, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            26             126
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      7
  MKI67 WILD-TYPE     41     36     46
D29V4, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             3              36
  CLUS_3             7              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 CLUS_4 CLUS_5 CLUS_6
  MKI67 MUTATED        7      6      6      3      4      1
  MKI67 WILD-TYPE     32     30     31      7     36     23
D29V5, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             7              32
  CLUS_2             6              30
  CLUS_3             6              31
  CLUS_4             3               7
  CLUS_5             4              36
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10      8      8      1
  MKI67 WILD-TYPE     55     56     32     16
D29V6, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1            10              55
  CLUS_2             8              56
  CLUS_3             8              32
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9     15      5
  MKI67 WILD-TYPE     70     70     78
D29V7, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             9              70
  CLUS_2            15              70
  CLUS_3             5              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
  MKI67 MUTATED        1      3      2     11      8      1      3
  MKI67 WILD-TYPE     43     38     15     22     27     30     43
D29V8, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             3              38
  CLUS_3             2              15
  CLUS_4            11              22
  CLUS_5             8              27
  CLUS_6             1              30
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        4     13     11
  MKI67 WILD-TYPE     65     66     81
D29V9, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             4              65
  CLUS_2            13              66
  CLUS_3            11              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
  MKI67 MUTATED       15      2      8      3
  MKI67 WILD-TYPE     58     41     71     42
D29V10, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1            15              58
  CLUS_2             2              41
  CLUS_3             8              71
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      6
  MKI67 WILD-TYPE     26     17     58
D29V11, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             3              26
  CLUS_2             2              17
  CLUS_3             6              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
  MKI67 MUTATED        2      2      7
  MKI67 WILD-TYPE     31     46     24
D29V12, multiclass
        clus
vv       MKI67 MUTATED MKI67 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             2              46
  CLUS_3             7              24
[1] 3 2
[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 = ING1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ING1 MUTATED        0      1      0      0
  ING1 WILD-TYPE     12     17     11     10
D30V1, multiclass
[1] "Remove cluster labels:" "ING1 MUTATED"          
clus
  ING1 MUTATED ING1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING1 MUTATED        1      0      0      0      0
  ING1 WILD-TYPE     11     10      7      7     15
D30V2, multiclass
[1] "Remove cluster labels:" "ING1 MUTATED"          
clus
  ING1 MUTATED ING1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" "ING1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"ING1 WILD-TYPE" "ING1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ING1 MUTATED        0     11      0      0      2
  ING1 WILD-TYPE     56    141     11      5     16
D30V3, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           11            141
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  ING1 MUTATED        3      1      4
  ING1 WILD-TYPE     40     38     49
D30V4, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             38
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  ING1 MUTATED        4      4      3      1      1      0
  ING1 WILD-TYPE     35     32     34      9     39     24
D30V5, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            4             32
  CLUS_3            3             34
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      5      3      0
  ING1 WILD-TYPE     60     59     37     17
D30V6, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            5             60
  CLUS_2            5             59
  CLUS_3            3             37
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      3      5
  ING1 WILD-TYPE     74     82     78
D30V7, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            5             74
  CLUS_2            3             82
  CLUS_3            5             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
  ING1 MUTATED        0      1      1      2      5      0      4
  ING1 WILD-TYPE     44     40     16     31     30     31     42
D30V8, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            2             31
  CLUS_5            5             30
  CLUS_6            0             31
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      6
  ING1 WILD-TYPE     66     76     86
D30V9, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            3             76
  CLUS_3            6             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
  ING1 MUTATED        7      0      5      0
  ING1 WILD-TYPE     66     43     74     45
D30V10, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            7             66
  CLUS_2            0             43
  CLUS_3            5             74
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      4      3
  ING1 WILD-TYPE     29     15     61
D30V11, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            4             15
  CLUS_3            3             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
  ING1 MUTATED        1      2      4
  ING1 WILD-TYPE     32     46     27
D30V12, multiclass
        clus
vv       ING1 MUTATED ING1 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            2             46
  CLUS_3            4             27
[1] 3 2
[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 = INTS7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INTS7 MUTATED        2      1      0      0
  INTS7 WILD-TYPE     10     17     11     10
D31V1, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INTS7 MUTATED        1      0      1      1      0
  INTS7 WILD-TYPE     11     10      6      6     15
D31V2, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INTS7 MUTATED        0      8      0      0      0
  INTS7 WILD-TYPE     56    144     11      5     18
D31V3, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             8             144
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  INTS7 MUTATED        0      0      2
  INTS7 WILD-TYPE     43     39     51
D31V4, multiclass
[1] "Remove cluster labels:" "INTS7 MUTATED"         
clus
  INTS7 MUTATED INTS7 WILD-TYPE 
              2             133 
     TCGA-A5-A0GQ      TCGA-A5-A0VO      TCGA-AJ-A23M      TCGA-AP-A059 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A06H 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AX-A06L      TCGA-AX-A0IS      TCGA-AX-A1C7      TCGA-AX-A1C8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JT 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11E      TCGA-B5-A11F      TCGA-B5-A11G 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11H      TCGA-B5-A11I      TCGA-B5-A11J      TCGA-B5-A11M 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q      TCGA-B5-A11R 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11V      TCGA-B5-A11W 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11X      TCGA-B5-A11Y      TCGA-B5-A11Z      TCGA-B5-A121 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A1MU      TCGA-B5-A1MY      TCGA-BG-A0VT      TCGA-BG-A0VV 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0VZ      TCGA-BG-A0W1 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A0W2      TCGA-BG-A0YU      TCGA-BG-A0YV      TCGA-BG-A186 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B      TCGA-BG-A18C 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC      TCGA-BK-A139 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0U5      TCGA-BS-A0U9 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0UL      TCGA-BS-A0V6      TCGA-BS-A0V7 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BS-A0V8      TCGA-BS-A0WQ      TCGA-D1-A0ZN      TCGA-D1-A0ZO 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A0ZP      TCGA-D1-A0ZQ      TCGA-D1-A0ZR      TCGA-D1-A0ZS 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A0ZU      TCGA-D1-A0ZV      TCGA-D1-A0ZZ      TCGA-D1-A101 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A103      TCGA-D1-A15V      TCGA-D1-A15W 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A15X      TCGA-D1-A15Z      TCGA-D1-A160      TCGA-D1-A161 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A168      TCGA-D1-A169 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E      TCGA-D1-A16F 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J      TCGA-D1-A16N 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R      TCGA-D1-A16S 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174      TCGA-D1-A176 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B      TCGA-D1-A17C 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H      TCGA-D1-A17K 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N      TCGA-D1-A17Q 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T      TCGA-D1-A17U 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH      TCGA-DI-A1NN 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8      TCGA-EY-A1GS 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW      TCGA-FI-A2EX 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-FI-A2F8 
"INTS7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INTS7 MUTATED        1      4      0      1      2      0
  INTS7 WILD-TYPE     38     32     37      9     38     24
D31V5, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             4              32
  CLUS_3             0              37
  CLUS_4             1               9
  CLUS_5             2              38
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INTS7 MUTATED        4      3      1      0
  INTS7 WILD-TYPE     61     61     39     17
D31V6, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             3              61
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS7 MUTATED        3      5      0
  INTS7 WILD-TYPE     76     80     83
D31V7, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             5              80
  CLUS_3             0              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
  INTS7 MUTATED        0      1      0      2      5      0      0
  INTS7 WILD-TYPE     44     40     17     31     30     31     46
D31V8, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             0              17
  CLUS_4             2              31
  CLUS_5             5              30
  CLUS_6             0              31
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS7 MUTATED        2      4      1
  INTS7 WILD-TYPE     67     75     91
D31V9, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              75
  CLUS_3             1              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
  INTS7 MUTATED        4      2      0      1
  INTS7 WILD-TYPE     69     41     79     44
D31V10, multiclass
        clus
vv       INTS7 MUTATED INTS7 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             2              41
  CLUS_3             0              79
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS7 MUTATED        1      0      0
  INTS7 WILD-TYPE     28     19     64
D31V11, multiclass
[1] "Remove cluster labels:" "INTS7 MUTATED"         
clus
  INTS7 MUTATED INTS7 WILD-TYPE 
              1             111 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17T      TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-DI-A0WH      TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-EO-A1Y8      TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-FI-A2EW      TCGA-FI-A2EX      TCGA-FI-A2F8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  INTS7 MUTATED        1      0      0
  INTS7 WILD-TYPE     32     48     31
D31V12, multiclass
[1] "Remove cluster labels:" "INTS7 MUTATED"         
clus
  INTS7 MUTATED INTS7 WILD-TYPE 
              1             111 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-D1-A17T      TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-DI-A0WH      TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-EO-A1Y8      TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 
     TCGA-FI-A2EW      TCGA-FI-A2EX      TCGA-FI-A2F8 
"INTS7 WILD-TYPE" "INTS7 WILD-TYPE" "INTS7 WILD-TYPE" 

Clustering(32) Variable = CCDC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC6 MUTATED        0      0      0      0
  CCDC6 WILD-TYPE     12     18     11     10
D32V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC6 MUTATED        0      0      0      0      0
  CCDC6 WILD-TYPE     12     10      7      7     15
D32V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC6 MUTATED        2      4      0      0      0
  CCDC6 WILD-TYPE     54    148     11      5     18
D32V3, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              54
  CLUS_2             4             148
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  CCDC6 MUTATED        3      1      1
  CCDC6 WILD-TYPE     40     38     52
D32V4, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             1              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
  CCDC6 MUTATED        2      0      1      1      0      1
  CCDC6 WILD-TYPE     37     36     36      9     40     23
D32V5, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              36
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      2      1
  CCDC6 WILD-TYPE     64     63     38     16
D32V6, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             1              63
  CLUS_3             2              38
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      1      2
  CCDC6 WILD-TYPE     76     84     81
D32V7, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             1              84
  CLUS_3             2              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
  CCDC6 MUTATED        1      0      2      1      1      0      1
  CCDC6 WILD-TYPE     43     41     15     32     34     31     45
D32V8, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             2              15
  CLUS_4             1              32
  CLUS_5             1              34
  CLUS_6             0              31
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        4      0      2
  CCDC6 WILD-TYPE     65     79     90
D32V9, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             0              79
  CLUS_3             2              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
  CCDC6 MUTATED        2      0      2      2
  CCDC6 WILD-TYPE     71     43     77     43
D32V10, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              71
  CLUS_2             0              43
  CLUS_3             2              77
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1      2
  CCDC6 WILD-TYPE     27     18     62
D32V11, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             1              18
  CLUS_3             2              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
  CCDC6 MUTATED        3      1      1
  CCDC6 WILD-TYPE     30     47     30
D32V12, multiclass
        clus
vv       CCDC6 MUTATED CCDC6 WILD-TYPE
  CLUS_1             3              30
  CLUS_2             1              47
  CLUS_3             1              30
[1] 3 2
[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 = EIF2S2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF2S2 MUTATED        1      0      0      0
  EIF2S2 WILD-TYPE     11     18     11     10
D33V1, multiclass
[1] "Remove cluster labels:" "EIF2S2 MUTATED"        
clus
  EIF2S2 MUTATED EIF2S2 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2S2 MUTATED        0      0      1      0      0
  EIF2S2 WILD-TYPE     12     10      6      7     15
D33V2, multiclass
[1] "Remove cluster labels:" "EIF2S2 MUTATED"        
clus
  EIF2S2 MUTATED EIF2S2 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"EIF2S2 WILD-TYPE" "EIF2S2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF2S2 MUTATED        0      9      0      0      0
  EIF2S2 WILD-TYPE     56    143     11      5     18
D33V3, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              9              143
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  EIF2S2 MUTATED        1      1      3
  EIF2S2 WILD-TYPE     42     38     50
D33V4, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EIF2S2 MUTATED        2      2      1      1      2      1
  EIF2S2 WILD-TYPE     37     34     36      9     38     23
D33V5, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              2               34
  CLUS_3              1               36
  CLUS_4              1                9
  CLUS_5              2               38
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF2S2 MUTATED        3      5      1      0
  EIF2S2 WILD-TYPE     62     59     39     17
D33V6, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              5               59
  CLUS_3              1               39
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2S2 MUTATED        3      5      1
  EIF2S2 WILD-TYPE     76     80     82
D33V7, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              5               80
  CLUS_3              1               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
  EIF2S2 MUTATED        1      1      1      2      3      1      0
  EIF2S2 WILD-TYPE     43     40     16     31     32     30     46
D33V8, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              1               40
  CLUS_3              1               16
  CLUS_4              2               31
  CLUS_5              3               32
  CLUS_6              1               30
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2S2 MUTATED        2      4      3
  EIF2S2 WILD-TYPE     67     75     89
D33V9, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               75
  CLUS_3              3               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
  EIF2S2 MUTATED        4      2      1      2
  EIF2S2 WILD-TYPE     69     41     78     43
D33V10, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              4               69
  CLUS_2              2               41
  CLUS_3              1               78
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF2S2 MUTATED        1      1      2
  EIF2S2 WILD-TYPE     28     18     62
D33V11, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              2               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
  EIF2S2 MUTATED        2      1      1
  EIF2S2 WILD-TYPE     31     47     30
D33V12, multiclass
        clus
vv       EIF2S2 MUTATED EIF2S2 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              1               47
  CLUS_3              1               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = RBBP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBBP6 MUTATED        1      3      0      1
  RBBP6 WILD-TYPE     11     15     11      9
D34V1, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             3              15
  CLUS_3             0              11
  CLUS_4             1               9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBBP6 MUTATED        4      0      0      1      0
  RBBP6 WILD-TYPE      8     10      7      6     15
D34V2, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             4               8
  CLUS_2             0              10
  CLUS_3             0               7
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBBP6 MUTATED        0     19      0      0      3
  RBBP6 WILD-TYPE     56    133     11      5     15
D34V3, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            19             133
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP6 MUTATED        3      3      5
  RBBP6 WILD-TYPE     40     36     48
D34V4, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             3              36
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  RBBP6 MUTATED        4      6      4      1      4      1
  RBBP6 WILD-TYPE     35     30     33      9     36     23
D34V5, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             6              30
  CLUS_3             4              33
  CLUS_4             1               9
  CLUS_5             4              36
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBBP6 MUTATED        7      8      4      1
  RBBP6 WILD-TYPE     58     56     36     16
D34V6, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             7              58
  CLUS_2             8              56
  CLUS_3             4              36
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP6 MUTATED        7     12      3
  RBBP6 WILD-TYPE     72     73     80
D34V7, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             7              72
  CLUS_2            12              73
  CLUS_3             3              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
  RBBP6 MUTATED        0      2      1      7      9      2      1
  RBBP6 WILD-TYPE     44     39     16     26     26     29     45
D34V8, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             2              39
  CLUS_3             1              16
  CLUS_4             7              26
  CLUS_5             9              26
  CLUS_6             2              29
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP6 MUTATED        5      8      8
  RBBP6 WILD-TYPE     64     71     84
D34V9, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             8              71
  CLUS_3             8              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
  RBBP6 MUTATED       14      2      4      1
  RBBP6 WILD-TYPE     59     41     75     44
D34V10, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1            14              59
  CLUS_2             2              41
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP6 MUTATED        0      4      5
  RBBP6 WILD-TYPE     29     15     59
D34V11, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             4              15
  CLUS_3             5              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
  RBBP6 MUTATED        1      2      6
  RBBP6 WILD-TYPE     32     46     25
D34V12, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             2              46
  CLUS_3             6              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"

Clustering(35) Variable = SOS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOS1 MUTATED        1      1      2      0
  SOS1 WILD-TYPE     11     17      9     10
D35V1, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            1             17
  CLUS_3            2              9
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOS1 MUTATED        1      0      1      1      1
  SOS1 WILD-TYPE     11     10      6      6     14
D35V2, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SOS1 MUTATED        0     11      0      1      0
  SOS1 WILD-TYPE     56    141     11      4     18
D35V3, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           11            141
  CLUS_3            0             11
  CLUS_4            1              4
  CLUS_5            0             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
  SOS1 MUTATED        2      0      2
  SOS1 WILD-TYPE     41     39     51
D35V4, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             39
  CLUS_3            2             51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SOS1 MUTATED        2      4      0      0      3      0
  SOS1 WILD-TYPE     37     32     37     10     37     24
D35V5, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            4             32
  CLUS_3            0             37
  CLUS_4            0             10
  CLUS_5            3             37
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOS1 MUTATED        4      5      0      0
  SOS1 WILD-TYPE     61     59     40     17
D35V6, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            4             61
  CLUS_2            5             59
  CLUS_3            0             40
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS1 MUTATED        4      3      4
  SOS1 WILD-TYPE     75     82     79
D35V7, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            3             82
  CLUS_3            4             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
  SOS1 MUTATED        0      0      1      2      4      3      1
  SOS1 WILD-TYPE     44     41     16     31     31     28     45
D35V8, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            2             31
  CLUS_5            4             31
  CLUS_6            3             28
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS1 MUTATED        1      6      4
  SOS1 WILD-TYPE     68     73     88
D35V9, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            6             73
  CLUS_3            4             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
  SOS1 MUTATED        5      1      4      1
  SOS1 WILD-TYPE     68     42     75     44
D35V10, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            5             68
  CLUS_2            1             42
  CLUS_3            4             75
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS1 MUTATED        1      2      1
  SOS1 WILD-TYPE     28     17     63
D35V11, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1             28
  CLUS_2            2             17
  CLUS_3            1             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
  SOS1 MUTATED        2      0      2
  SOS1 WILD-TYPE     31     48     29
D35V12, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            0             48
  CLUS_3            2             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = NAT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAT1 MUTATED        2      1      0      0
  NAT1 WILD-TYPE     10     17     11     10
D36V1, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAT1 MUTATED        1      0      0      2      0
  NAT1 WILD-TYPE     11     10      7      5     15
D36V2, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            0              7
  CLUS_4            2              5
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAT1 MUTATED        0      6      0      0      1
  NAT1 WILD-TYPE     56    146     11      5     17
D36V3, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            6            146
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  NAT1 MUTATED        0      0      2
  NAT1 WILD-TYPE     43     39     51
D36V4, multiclass
[1] "Remove cluster labels:" "NAT1 MUTATED"          
clus
  NAT1 MUTATED NAT1 WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A0IS     TCGA-AX-A0J0     TCGA-AX-A1C7 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A0W1     TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BS-A0U9     TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A0ZS     TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A101     TCGA-D1-A102     TCGA-D1-A15V     TCGA-D1-A15W 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-FI-A2F8 
"NAT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NAT1 MUTATED        0      1      3      1      0      1
  NAT1 WILD-TYPE     39     35     34      9     40     23
D36V5, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             35
  CLUS_3            3             34
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAT1 MUTATED        1      0      4      1
  NAT1 WILD-TYPE     64     64     36     16
D36V6, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            0             64
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAT1 MUTATED        2      4      1
  NAT1 WILD-TYPE     77     81     82
D36V7, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            2             77
  CLUS_2            4             81
  CLUS_3            1             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
  NAT1 MUTATED        0      0      0      3      4      0      0
  NAT1 WILD-TYPE     44     41     17     30     31     31     46
D36V8, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            0             17
  CLUS_4            3             30
  CLUS_5            4             31
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAT1 MUTATED        2      2      3
  NAT1 WILD-TYPE     67     77     89
D36V9, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             77
  CLUS_3            3             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
  NAT1 MUTATED        4      0      3      0
  NAT1 WILD-TYPE     69     43     76     45
D36V10, multiclass
        clus
vv       NAT1 MUTATED NAT1 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            0             43
  CLUS_3            3             76
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAT1 MUTATED        1      0      1
  NAT1 WILD-TYPE     28     19     63
D36V11, multiclass
[1] "Remove cluster labels:" "NAT1 MUTATED"          
clus
  NAT1 MUTATED NAT1 WILD-TYPE 
             2            110 
    TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M     TCGA-AP-A059 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAT1 MUTATED        0      0      2
  NAT1 WILD-TYPE     33     48     29
D36V12, multiclass
[1] "Remove cluster labels:" "NAT1 MUTATED"          
clus
  NAT1 MUTATED NAT1 WILD-TYPE 
             2            110 
    TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M     TCGA-AP-A059 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"NAT1 WILD-TYPE" "NAT1 WILD-TYPE" 

Clustering(37) Variable = ADNP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADNP MUTATED        4      1      1      0
  ADNP WILD-TYPE      8     17     10     10
D37V1, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            4              8
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADNP MUTATED        1      0      2      2      1
  ADNP WILD-TYPE     11     10      5      5     14
D37V2, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            2              5
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADNP MUTATED        0     13      0      0      1
  ADNP WILD-TYPE     56    139     11      5     17
D37V3, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            0             56
  CLUS_2           13            139
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  ADNP MUTATED        2      1      3
  ADNP WILD-TYPE     41     38     50
D37V4, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADNP MUTATED        4      3      2      2      2      1
  ADNP WILD-TYPE     35     33     35      8     38     23
D37V5, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            4             35
  CLUS_2            3             33
  CLUS_3            2             35
  CLUS_4            2              8
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADNP MUTATED        3      6      4      1
  ADNP WILD-TYPE     62     58     36     16
D37V6, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            3             62
  CLUS_2            6             58
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADNP MUTATED        4      7      3
  ADNP WILD-TYPE     75     78     80
D37V7, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            4             75
  CLUS_2            7             78
  CLUS_3            3             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
  ADNP MUTATED        0      0      1      5      5      2      1
  ADNP WILD-TYPE     44     41     16     28     30     29     45
D37V8, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            5             28
  CLUS_5            5             30
  CLUS_6            2             29
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADNP MUTATED        3      6      5
  ADNP WILD-TYPE     66     73     87
D37V9, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             73
  CLUS_3            5             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
  ADNP MUTATED        7      2      3      2
  ADNP WILD-TYPE     66     41     76     43
D37V10, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            7             66
  CLUS_2            2             41
  CLUS_3            3             76
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADNP MUTATED        2      2      0
  ADNP WILD-TYPE     27     17     64
D37V11, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            2             27
  CLUS_2            2             17
  CLUS_3            0             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
  ADNP MUTATED        2      0      2
  ADNP WILD-TYPE     31     48     29
D37V12, multiclass
        clus
vv       ADNP MUTATED ADNP WILD-TYPE
  CLUS_1            2             31
  CLUS_2            0             48
  CLUS_3            2             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = VPS11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPS11 MUTATED        2      1      0      0
  VPS11 WILD-TYPE     10     17     11     10
D38V1, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS11 MUTATED        1      0      1      1      0
  VPS11 WILD-TYPE     11     10      6      6     15
D38V2, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VPS11 MUTATED        1      9      0      0      2
  VPS11 WILD-TYPE     55    143     11      5     16
D38V3, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             1              55
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  VPS11 MUTATED        2      1      2
  VPS11 WILD-TYPE     41     38     51
D38V4, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VPS11 MUTATED        3      2      2      2      1      0
  VPS11 WILD-TYPE     36     34     35      8     39     24
D38V5, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             2              34
  CLUS_3             2              35
  CLUS_4             2               8
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VPS11 MUTATED        4      2      4      0
  VPS11 WILD-TYPE     61     62     36     17
D38V6, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             2              62
  CLUS_3             4              36
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS11 MUTATED        4      6      2
  VPS11 WILD-TYPE     75     79     81
D38V7, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             6              79
  CLUS_3             2              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
  VPS11 MUTATED        1      0      1      4      5      1      0
  VPS11 WILD-TYPE     43     41     16     29     30     30     46
D38V8, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             4              29
  CLUS_5             5              30
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS11 MUTATED        5      4      3
  VPS11 WILD-TYPE     64     75     89
D38V9, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             4              75
  CLUS_3             3              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
  VPS11 MUTATED        6      0      3      3
  VPS11 WILD-TYPE     67     43     76     42
D38V10, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VPS11 MUTATED        2      0      1
  VPS11 WILD-TYPE     27     19     63
D38V11, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             0              19
  CLUS_3             1              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
  VPS11 MUTATED        2      0      1
  VPS11 WILD-TYPE     31     48     30
D38V12, multiclass
        clus
vv       VPS11 MUTATED VPS11 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             0              48
  CLUS_3             1              30
[1] 3 2
[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 = L1TD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  L1TD1 MUTATED        1      1      0      0
  L1TD1 WILD-TYPE     11     17     11     10
D39V1, multiclass
[1] "Remove cluster labels:" "L1TD1 MUTATED"         
clus
  L1TD1 MUTATED L1TD1 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-BK-A0CC 
"L1TD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  L1TD1 MUTATED        1      0      1      0      0
  L1TD1 WILD-TYPE     11     10      6      7     15
D39V2, multiclass
[1] "Remove cluster labels:" "L1TD1 MUTATED"         
clus
  L1TD1 MUTATED L1TD1 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" "L1TD1 WILD-TYPE" 
     TCGA-BK-A0CC 
"L1TD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  L1TD1 MUTATED        0     14      0      0      2
  L1TD1 WILD-TYPE     56    138     11      5     16
D39V3, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            14             138
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  L1TD1 MUTATED        2      1      7
  L1TD1 WILD-TYPE     41     38     46
D39V4, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             7              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 CLUS_4 CLUS_5 CLUS_6
  L1TD1 MUTATED        3      5      2      2      0      1
  L1TD1 WILD-TYPE     36     31     35      8     40     23
D39V5, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             5              31
  CLUS_3             2              35
  CLUS_4             2               8
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      5      3      1
  L1TD1 WILD-TYPE     61     59     37     16
D39V6, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             5              59
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      6      3
  L1TD1 WILD-TYPE     72     79     80
D39V7, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             7              72
  CLUS_2             6              79
  CLUS_3             3              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
  L1TD1 MUTATED        0      1      1      5      7      0      2
  L1TD1 WILD-TYPE     44     40     16     28     28     31     44
D39V8, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             5              28
  CLUS_5             7              28
  CLUS_6             0              31
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      6      5
  L1TD1 WILD-TYPE     65     73     87
D39V9, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             6              73
  CLUS_3             5              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
  L1TD1 MUTATED        8      2      4      1
  L1TD1 WILD-TYPE     65     41     75     44
D39V10, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             8              65
  CLUS_2             2              41
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      4
  L1TD1 WILD-TYPE     28     17     60
D39V11, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             4              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
  L1TD1 MUTATED        2      2      3
  L1TD1 WILD-TYPE     31     46     28
D39V12, multiclass
        clus
vv       L1TD1 MUTATED L1TD1 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             2              46
  CLUS_3             3              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"

Clustering(40) Variable = MARK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MARK3 MUTATED        3      1      0      0
  MARK3 WILD-TYPE      9     17     11     10
D40V1, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARK3 MUTATED        1      0      2      1      0
  MARK3 WILD-TYPE     11     10      5      6     15
D40V2, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             2               5
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MARK3 MUTATED        0      9      0      0      2
  MARK3 WILD-TYPE     56    143     11      5     16
D40V3, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  MARK3 MUTATED        0      0      4
  MARK3 WILD-TYPE     43     39     49
D40V4, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             0              39
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  MARK3 MUTATED        1      6      1      1      1      0
  MARK3 WILD-TYPE     38     30     36      9     39     24
D40V5, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             6              30
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MARK3 MUTATED        5      4      1      0
  MARK3 WILD-TYPE     60     60     39     17
D40V6, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             5              60
  CLUS_2             4              60
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK3 MUTATED        4      5      2
  MARK3 WILD-TYPE     75     80     81
D40V7, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             5              80
  CLUS_3             2              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
  MARK3 MUTATED        0      0      0      3      6      2      0
  MARK3 WILD-TYPE     44     41     17     30     29     29     46
D40V8, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             3              30
  CLUS_5             6              29
  CLUS_6             2              29
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK3 MUTATED        3      5      2
  MARK3 WILD-TYPE     66     74     90
D40V9, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             5              74
  CLUS_3             2              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
  MARK3 MUTATED        6      1      2      1
  MARK3 WILD-TYPE     67     42     77     44
D40V10, multiclass
        clus
vv       MARK3 MUTATED MARK3 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             1              42
  CLUS_3             2              77
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK3 MUTATED        1      0      1
  MARK3 WILD-TYPE     28     19     63
D40V11, multiclass
[1] "Remove cluster labels:" "MARK3 MUTATED"         
clus
  MARK3 MUTATED MARK3 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11J 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MARK3 MUTATED        1      0      1
  MARK3 WILD-TYPE     32     48     30
D40V12, multiclass
[1] "Remove cluster labels:" "MARK3 MUTATED"         
clus
  MARK3 MUTATED MARK3 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11J 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"MARK3 WILD-TYPE" "MARK3 WILD-TYPE" 

Clustering(41) Variable = CTNND1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNND1 MUTATED        3      1      1      0
  CTNND1 WILD-TYPE      9     17     10     10
D41V1, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              3                9
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      1      1
  CTNND1 WILD-TYPE     11     10      5      6     14
D41V2, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              1                6
  CLUS_5              1               14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     15      0      0      3
  CTNND1 WILD-TYPE     55    137     11      5     15
D41V3, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             15              137
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              3               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      4
  CTNND1 WILD-TYPE     40     37     49
D41V4, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              2               37
  CLUS_3              4               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 CLUS_4 CLUS_5 CLUS_6
  CTNND1 MUTATED        3      4      1      4      4      0
  CTNND1 WILD-TYPE     36     32     36      6     36     24
D41V5, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              4               32
  CLUS_3              1               36
  CLUS_4              4                6
  CLUS_5              4               36
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      6      4      0
  CTNND1 WILD-TYPE     59     58     36     17
D41V6, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              6               59
  CLUS_2              6               58
  CLUS_3              4               36
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      5      6
  CTNND1 WILD-TYPE     71     80     77
D41V7, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              8               71
  CLUS_2              5               80
  CLUS_3              6               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
  CTNND1 MUTATED        1      1      1      3      8      2      3
  CTNND1 WILD-TYPE     43     40     16     30     27     29     43
D41V8, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              1               40
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              8               27
  CLUS_6              2               29
  CLUS_7              3               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        6      5      7
  CTNND1 WILD-TYPE     63     74     85
D41V9, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              5               74
  CLUS_3              7               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
  CTNND1 MUTATED        9      1      6      2
  CTNND1 WILD-TYPE     64     42     73     43
D41V10, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              9               64
  CLUS_2              1               42
  CLUS_3              6               73
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      3      3
  CTNND1 WILD-TYPE     27     16     61
D41V11, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              2               27
  CLUS_2              3               16
  CLUS_3              3               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
  CTNND1 MUTATED        3      2      3
  CTNND1 WILD-TYPE     30     46     28
D41V12, multiclass
        clus
vv       CTNND1 MUTATED CTNND1 WILD-TYPE
  CLUS_1              3               30
  CLUS_2              2               46
  CLUS_3              3               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"

Clustering(42) Variable = GFAP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GFAP MUTATED        2      0      0      0
  GFAP WILD-TYPE     10     18     11     10
D42V1, multiclass
[1] "Remove cluster labels:" "GFAP MUTATED"          
clus
  GFAP MUTATED GFAP WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0K0     TCGA-B5-A0K1 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BK-A0CC 
"GFAP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFAP MUTATED        0      0      1      1      0
  GFAP WILD-TYPE     12     10      6      6     15
D42V2, multiclass
[1] "Remove cluster labels:" "GFAP MUTATED"          
clus
  GFAP MUTATED GFAP WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0K0     TCGA-B5-A0K1 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BK-A0CC 
"GFAP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GFAP MUTATED        0      7      0      0      2
  GFAP WILD-TYPE     56    145     11      5     16
D42V3, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            0             56
  CLUS_2            7            145
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  GFAP MUTATED        2      0      3
  GFAP WILD-TYPE     41     39     50
D42V4, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             39
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GFAP MUTATED        4      2      1      0      0      1
  GFAP WILD-TYPE     35     34     36     10     40     23
D42V5, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            4             35
  CLUS_2            2             34
  CLUS_3            1             36
  CLUS_4            0             10
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GFAP MUTATED        2      4      1      1
  GFAP WILD-TYPE     63     60     39     16
D42V6, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4             60
  CLUS_3            1             39
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFAP MUTATED        4      5      0
  GFAP WILD-TYPE     75     80     83
D42V7, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            4             75
  CLUS_2            5             80
  CLUS_3            0             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
  GFAP MUTATED        0      0      1      4      3      1      0
  GFAP WILD-TYPE     44     41     16     29     32     30     46
D42V8, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            4             29
  CLUS_5            3             32
  CLUS_6            1             30
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFAP MUTATED        2      5      2
  GFAP WILD-TYPE     67     74     90
D42V9, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             74
  CLUS_3            2             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
  GFAP MUTATED        7      1      1      0
  GFAP WILD-TYPE     66     42     78     45
D42V10, multiclass
        clus
vv       GFAP MUTATED GFAP WILD-TYPE
  CLUS_1            7             66
  CLUS_2            1             42
  CLUS_3            1             78
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFAP MUTATED        0      2      0
  GFAP WILD-TYPE     29     17     64
D42V11, multiclass
[1] "Remove cluster labels:" "GFAP MUTATED"          
clus
  GFAP MUTATED GFAP WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064     TCGA-AX-A06H 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT     TCGA-B5-A0K8 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J     TCGA-B5-A11M 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W     TCGA-B5-A11Z 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VV 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV     TCGA-BG-A186 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA     TCGA-BS-A0V6 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102     TCGA-D1-A15V 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160     TCGA-D1-A161 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GFAP MUTATED        1      0      1
  GFAP WILD-TYPE     32     48     30
D42V12, multiclass
[1] "Remove cluster labels:" "GFAP MUTATED"          
clus
  GFAP MUTATED GFAP WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064     TCGA-AX-A06H 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT     TCGA-B5-A0K8 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J     TCGA-B5-A11M 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W     TCGA-B5-A11Z 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VV 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV     TCGA-BG-A186 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA     TCGA-BS-A0V6 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102     TCGA-D1-A15V 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160     TCGA-D1-A161 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" "GFAP WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"GFAP WILD-TYPE" "GFAP WILD-TYPE" 

Clustering(43) Variable = PPP2R1A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED        3      5      0      0
  PPP2R1A WILD-TYPE      9     13     11     10
D43V1, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               5                13
  CLUS_3               0                11
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4      2      0      2      0
  PPP2R1A WILD-TYPE      8      8      7      5     15
D43V2, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               2                 8
  CLUS_3               0                 7
  CLUS_4               2                 5
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       12     11      1      0      1
  PPP2R1A WILD-TYPE     44    141     10      5     17
D43V3, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              12                44
  CLUS_2              11               141
  CLUS_3               1                10
  CLUS_4               0                 5
  CLUS_5               1                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
  PPP2R1A MUTATED       10      1      5
  PPP2R1A WILD-TYPE     33     38     48
D43V4, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              10                33
  CLUS_2               1                38
  CLUS_3               5                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 CLUS_4 CLUS_5 CLUS_6
  PPP2R1A MUTATED        3      7      2      0      2      4
  PPP2R1A WILD-TYPE     36     29     35     10     38     20
D43V5, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               3                36
  CLUS_2               7                29
  CLUS_3               2                35
  CLUS_4               0                10
  CLUS_5               2                38
  CLUS_6               4                20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      5      4      1
  PPP2R1A WILD-TYPE     57     59     36     16
D43V6, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               8                57
  CLUS_2               5                59
  CLUS_3               4                36
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       17      6      4
  PPP2R1A WILD-TYPE     62     79     79
D43V7, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              17                62
  CLUS_2               6                79
  CLUS_3               4                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
  PPP2R1A MUTATED       12      2      2      4      4      1      2
  PPP2R1A WILD-TYPE     32     39     15     29     31     30     44
D43V8, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              12                32
  CLUS_2               2                39
  CLUS_3               2                15
  CLUS_4               4                29
  CLUS_5               4                31
  CLUS_6               1                30
  CLUS_7               2                44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       14      6      5
  PPP2R1A WILD-TYPE     55     73     87
D43V9, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              14                55
  CLUS_2               6                73
  CLUS_3               5                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
  PPP2R1A MUTATED        6      2      4     13
  PPP2R1A WILD-TYPE     67     41     75     32
D43V10, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               6                67
  CLUS_2               2                41
  CLUS_3               4                75
  CLUS_4              13                32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      4      4
  PPP2R1A WILD-TYPE     21     15     60
D43V11, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               8                21
  CLUS_2               4                15
  CLUS_3               4                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
  PPP2R1A MUTATED        9      3      4
  PPP2R1A WILD-TYPE     24     45     27
D43V12, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               9                24
  CLUS_2               3                45
  CLUS_3               4                27
[1] 3 2
[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 = C9ORF102 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF102 MUTATED        2      2      0      0
  C9ORF102 WILD-TYPE     10     16     11     10
D44V1, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                2                 16
  CLUS_3                0                 11
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      1      1      0
  C9ORF102 WILD-TYPE     10     10      6      6     15
D44V2, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                0                 10
  CLUS_3                1                  6
  CLUS_4                1                  6
  CLUS_5                0                 15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     14      0      0      2
  C9ORF102 WILD-TYPE     56    138     11      5     16
D44V3, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                 56
  CLUS_2               14                138
  CLUS_3                0                 11
  CLUS_4                0                  5
  CLUS_5                2                 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
  C9ORF102 MUTATED        2      1      4
  C9ORF102 WILD-TYPE     41     38     49
D44V4, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 38
  CLUS_3                4                 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 CLUS_4 CLUS_5 CLUS_6
  C9ORF102 MUTATED        4      4      2      1      2      1
  C9ORF102 WILD-TYPE     35     32     35      9     38     23
D44V5, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                4                 35
  CLUS_2                4                 32
  CLUS_3                2                 35
  CLUS_4                1                  9
  CLUS_5                2                 38
  CLUS_6                1                 23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      6      3      1
  C9ORF102 WILD-TYPE     61     58     37     16
D44V6, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                4                 61
  CLUS_2                6                 58
  CLUS_3                3                 37
  CLUS_4                1                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      8      2
  C9ORF102 WILD-TYPE     73     77     81
D44V7, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                6                 73
  CLUS_2                8                 77
  CLUS_3                2                 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
  C9ORF102 MUTATED        0      1      1      7      6      0      1
  C9ORF102 WILD-TYPE     44     40     16     26     29     31     45
D44V8, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                 44
  CLUS_2                1                 40
  CLUS_3                1                 16
  CLUS_4                7                 26
  CLUS_5                6                 29
  CLUS_6                0                 31
  CLUS_7                1                 45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      8      4
  C9ORF102 WILD-TYPE     66     71     88
D44V9, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                8                 71
  CLUS_3                4                 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
  C9ORF102 MUTATED        8      2      3      2
  C9ORF102 WILD-TYPE     65     41     76     43
D44V10, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                8                 65
  CLUS_2                2                 41
  CLUS_3                3                 76
  CLUS_4                2                 43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      2
  C9ORF102 WILD-TYPE     29     17     62
D44V11, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                0                 29
  CLUS_2                2                 17
  CLUS_3                2                 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
  C9ORF102 MUTATED        1      1      2
  C9ORF102 WILD-TYPE     32     47     29
D44V12, multiclass
        clus
vv       C9ORF102 MUTATED C9ORF102 WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                1                 47
  CLUS_3                2                 29
[1] 3 2
[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 = EIF4A2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4A2 MUTATED        1      1      0      0
  EIF4A2 WILD-TYPE     11     17     11     10
D45V1, multiclass
[1] "Remove cluster labels:" "EIF4A2 MUTATED"        
clus
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AX-A062       TCGA-AX-A063       TCGA-AX-A06B       TCGA-AX-A0IW 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-BK-A0CC 
"EIF4A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4A2 MUTATED        1      0      1      0      0
  EIF4A2 WILD-TYPE     11     10      6      7     15
D45V2, multiclass
[1] "Remove cluster labels:" "EIF4A2 MUTATED"        
clus
  EIF4A2 MUTATED EIF4A2 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-AX-A062       TCGA-AX-A063       TCGA-AX-A06B       TCGA-AX-A0IW 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" "EIF4A2 WILD-TYPE" 
      TCGA-BK-A0CC 
"EIF4A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4A2 MUTATED        0      6      0      0      1
  EIF4A2 WILD-TYPE     56    146     11      5     17
D45V3, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              6              146
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  EIF4A2 MUTATED        1      0      2
  EIF4A2 WILD-TYPE     42     39     51
D45V4, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      1      1      1      2      0
  EIF4A2 WILD-TYPE     37     35     36      9     38     24
D45V5, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              1               35
  CLUS_3              1               36
  CLUS_4              1                9
  CLUS_5              2               38
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      4      2      0
  EIF4A2 WILD-TYPE     64     60     38     17
D45V6, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4               60
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      5      0
  EIF4A2 WILD-TYPE     77     80     83
D45V7, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              5               80
  CLUS_3              0               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
  EIF4A2 MUTATED        0      2      1      2      2      0      0
  EIF4A2 WILD-TYPE     44     39     16     31     33     31     46
D45V8, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              2               39
  CLUS_3              1               16
  CLUS_4              2               31
  CLUS_5              2               33
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        2      4      1
  EIF4A2 WILD-TYPE     67     75     91
D45V9, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               75
  CLUS_3              1               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
  EIF4A2 MUTATED        4      2      0      1
  EIF4A2 WILD-TYPE     69     41     79     44
D45V10, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              4               69
  CLUS_2              2               41
  CLUS_3              0               79
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1      1
  EIF4A2 WILD-TYPE     28     18     63
D45V11, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              1               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
  EIF4A2 MUTATED        1      1      1
  EIF4A2 WILD-TYPE     32     47     30
D45V12, multiclass
        clus
vv       EIF4A2 MUTATED EIF4A2 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              1               47
  CLUS_3              1               30
[1] 3 2
[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 = ZNF471 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF471 MUTATED        2      1      1      0
  ZNF471 WILD-TYPE     10     17     10     10
D46V1, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF471 MUTATED        1      0      2      1      0
  ZNF471 WILD-TYPE     11     10      5      6     15
D46V2, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF471 MUTATED        0     14      0      0      1
  ZNF471 WILD-TYPE     56    138     11      5     17
D46V3, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             14              138
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  ZNF471 MUTATED        1      2      4
  ZNF471 WILD-TYPE     42     37     49
D46V4, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               37
  CLUS_3              4               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 CLUS_4 CLUS_5 CLUS_6
  ZNF471 MUTATED        4      4      2      1      1      1
  ZNF471 WILD-TYPE     35     32     35      9     39     23
D46V5, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              4               32
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF471 MUTATED        6      3      3      1
  ZNF471 WILD-TYPE     59     61     37     16
D46V6, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              6               59
  CLUS_2              3               61
  CLUS_3              3               37
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF471 MUTATED        5      7      3
  ZNF471 WILD-TYPE     74     78     80
D46V7, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              7               78
  CLUS_3              3               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
  ZNF471 MUTATED        0      0      0      6      7      1      1
  ZNF471 WILD-TYPE     44     41     17     27     28     30     45
D46V8, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              6               27
  CLUS_5              7               28
  CLUS_6              1               30
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF471 MUTATED        3      8      3
  ZNF471 WILD-TYPE     66     71     89
D46V9, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              8               71
  CLUS_3              3               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
  ZNF471 MUTATED        8      2      3      1
  ZNF471 WILD-TYPE     65     41     76     44
D46V10, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              8               65
  CLUS_2              2               41
  CLUS_3              3               76
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF471 MUTATED        1      1      3
  ZNF471 WILD-TYPE     28     18     61
D46V11, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              3               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
  ZNF471 MUTATED        1      1      3
  ZNF471 WILD-TYPE     32     47     28
D46V12, multiclass
        clus
vv       ZNF471 MUTATED ZNF471 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              1               47
  CLUS_3              3               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"

Clustering(47) Variable = CDK17 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK17 MUTATED        3      0      2      0
  CDK17 WILD-TYPE      9     18      9     10
D47V1, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             0              18
  CLUS_3             2               9
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      3      2      0
  CDK17 WILD-TYPE     12     10      4      5     15
D47V2, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              12
  CLUS_2             0              10
  CLUS_3             3               4
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1     10      0      0      3
  CDK17 WILD-TYPE     55    142     11      5     15
D47V3, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        0      1      5
  CDK17 WILD-TYPE     43     38     48
D47V4, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  CDK17 MUTATED        4      1      3      0      2      1
  CDK17 WILD-TYPE     35     35     34     10     38     23
D47V5, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             1              35
  CLUS_3             3              34
  CLUS_4             0              10
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      4      3      0
  CDK17 WILD-TYPE     61     60     37     17
D47V6, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4              60
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      5      4
  CDK17 WILD-TYPE     74     80     79
D47V7, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             5              74
  CLUS_2             5              80
  CLUS_3             4              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
  CDK17 MUTATED        1      1      2      5      2      3      0
  CDK17 WILD-TYPE     43     40     15     28     33     28     46
D47V8, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             1              40
  CLUS_3             2              15
  CLUS_4             5              28
  CLUS_5             2              33
  CLUS_6             3              28
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      7      4
  CDK17 WILD-TYPE     66     72     88
D47V9, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             7              72
  CLUS_3             4              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
  CDK17 MUTATED        6      1      4      3
  CDK17 WILD-TYPE     67     42     75     42
D47V10, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             1              42
  CLUS_3             4              75
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      0      4
  CDK17 WILD-TYPE     27     19     60
D47V11, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             0              19
  CLUS_3             4              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
  CDK17 MUTATED        2      0      4
  CDK17 WILD-TYPE     31     48     27
D47V12, multiclass
        clus
vv       CDK17 MUTATED CDK17 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             0              48
  CLUS_3             4              27
[1] 3 2
[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 = SIN3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIN3A MUTATED        1      1      0      0
  SIN3A WILD-TYPE     11     17     11     10
D48V1, multiclass
[1] "Remove cluster labels:" "SIN3A MUTATED"         
clus
  SIN3A MUTATED SIN3A WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-BK-A0CC 
"SIN3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIN3A MUTATED        1      0      0      1      0
  SIN3A WILD-TYPE     11     10      7      6     15
D48V2, multiclass
[1] "Remove cluster labels:" "SIN3A MUTATED"         
clus
  SIN3A MUTATED SIN3A WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-BK-A0CC 
"SIN3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIN3A MUTATED        0     16      1      0      3
  SIN3A WILD-TYPE     56    136     10      5     15
D48V3, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             0              56
  CLUS_2            16             136
  CLUS_3             1              10
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        4      2      8
  SIN3A WILD-TYPE     39     37     45
D48V4, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             4              39
  CLUS_2             2              37
  CLUS_3             8              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 CLUS_4 CLUS_5 CLUS_6
  SIN3A MUTATED        3      9      3      2      0      1
  SIN3A WILD-TYPE     36     27     34      8     40     23
D48V5, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             3              36
  CLUS_2             9              27
  CLUS_3             3              34
  CLUS_4             2               8
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIN3A MUTATED        7      4      6      1
  SIN3A WILD-TYPE     58     60     34     16
D48V6, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             7              58
  CLUS_2             4              60
  CLUS_3             6              34
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        6     13      2
  SIN3A WILD-TYPE     73     72     81
D48V7, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             6              73
  CLUS_2            13              72
  CLUS_3             2              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
  SIN3A MUTATED        0      3      1      5     10      1      1
  SIN3A WILD-TYPE     44     38     16     28     25     30     45
D48V8, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             0              44
  CLUS_2             3              38
  CLUS_3             1              16
  CLUS_4             5              28
  CLUS_5            10              25
  CLUS_6             1              30
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        8     10      3
  SIN3A WILD-TYPE     61     69     89
D48V9, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             8              61
  CLUS_2            10              69
  CLUS_3             3              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
  SIN3A MUTATED       15      2      1      3
  SIN3A WILD-TYPE     58     41     78     42
D48V10, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1            15              58
  CLUS_2             2              41
  CLUS_3             1              78
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        4      1      4
  SIN3A WILD-TYPE     25     18     60
D48V11, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             4              25
  CLUS_2             1              18
  CLUS_3             4              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
  SIN3A MUTATED        4      2      3
  SIN3A WILD-TYPE     29     46     28
D48V12, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             4              29
  CLUS_2             2              46
  CLUS_3             3              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"

Clustering(49) Variable = ZNF485 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF485 MUTATED        1      1      1      0
  ZNF485 WILD-TYPE     11     17     10     10
D49V1, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF485 MUTATED        1      0      2      0      0
  ZNF485 WILD-TYPE     11     10      5      7     15
D49V2, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF485 MUTATED        0      9      0      0      0
  ZNF485 WILD-TYPE     56    143     11      5     18
D49V3, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              9              143
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  ZNF485 MUTATED        1      1      2
  ZNF485 WILD-TYPE     42     38     51
D49V4, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF485 MUTATED        2      3      0      1      1      1
  ZNF485 WILD-TYPE     37     33     37      9     39     23
D49V5, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              3               33
  CLUS_3              0               37
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF485 MUTATED        4      2      1      1
  ZNF485 WILD-TYPE     61     62     39     16
D49V6, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              2               62
  CLUS_3              1               39
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF485 MUTATED        4      3      2
  ZNF485 WILD-TYPE     75     82     81
D49V7, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              4               75
  CLUS_2              3               82
  CLUS_3              2               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
  ZNF485 MUTATED        1      0      1      2      3      1      1
  ZNF485 WILD-TYPE     43     41     16     31     32     30     45
D49V8, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              2               31
  CLUS_5              3               32
  CLUS_6              1               30
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF485 MUTATED        1      6      2
  ZNF485 WILD-TYPE     68     73     90
D49V9, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              6               73
  CLUS_3              2               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
  ZNF485 MUTATED        5      1      1      2
  ZNF485 WILD-TYPE     68     42     78     43
D49V10, multiclass
        clus
vv       ZNF485 MUTATED ZNF485 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              1               78
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF485 MUTATED        1      1      0
  ZNF485 WILD-TYPE     28     18     64
D49V11, multiclass
[1] "Remove cluster labels:" "ZNF485 MUTATED"        
clus
  ZNF485 MUTATED ZNF485 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A174 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF485 MUTATED        2      0      0
  ZNF485 WILD-TYPE     31     48     31
D49V12, multiclass
[1] "Remove cluster labels:" "ZNF485 MUTATED"        
clus
  ZNF485 MUTATED ZNF485 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A174 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"ZNF485 WILD-TYPE" "ZNF485 WILD-TYPE" 

Clustering(50) Variable = RSBN1L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RSBN1L MUTATED        3      1      0      0
  RSBN1L WILD-TYPE      9     17     11     10
D50V1, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              3                9
  CLUS_2              1               17
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSBN1L MUTATED        1      0      1      2      0
  RSBN1L WILD-TYPE     11     10      6      5     15
D50V2, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              2                5
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RSBN1L MUTATED        1      8      0      0      3
  RSBN1L WILD-TYPE     55    144     11      5     15
D50V3, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              1               55
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              3               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RSBN1L MUTATED        2      0      2
  RSBN1L WILD-TYPE     41     39     51
D50V4, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              2               41
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RSBN1L MUTATED        4      3      0      3      1      0
  RSBN1L WILD-TYPE     35     33     37      7     39     24
D50V5, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              4               35
  CLUS_2              3               33
  CLUS_3              0               37
  CLUS_4              3                7
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RSBN1L MUTATED        5      3      3      0
  RSBN1L WILD-TYPE     60     61     37     17
D50V6, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              5               60
  CLUS_2              3               61
  CLUS_3              3               37
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RSBN1L MUTATED        6      4      2
  RSBN1L WILD-TYPE     73     81     81
D50V7, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              6               73
  CLUS_2              4               81
  CLUS_3              2               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
  RSBN1L MUTATED        0      0      1      3      6      1      1
  RSBN1L WILD-TYPE     44     41     16     30     29     30     45
D50V8, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              6               29
  CLUS_6              1               30
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RSBN1L MUTATED        4      5      2
  RSBN1L WILD-TYPE     65     74     90
D50V9, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              4               65
  CLUS_2              5               74
  CLUS_3              2               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
  RSBN1L MUTATED        5      1      3      2
  RSBN1L WILD-TYPE     68     42     76     43
D50V10, multiclass
        clus
vv       RSBN1L MUTATED RSBN1L WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RSBN1L MUTATED        1      0      0
  RSBN1L WILD-TYPE     28     19     64
D50V11, multiclass
[1] "Remove cluster labels:" "RSBN1L MUTATED"        
clus
  RSBN1L MUTATED RSBN1L WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A160 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RSBN1L MUTATED        1      0      0
  RSBN1L WILD-TYPE     32     48     31
D50V12, multiclass
[1] "Remove cluster labels:" "RSBN1L MUTATED"        
clus
  RSBN1L MUTATED RSBN1L WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A160 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" "RSBN1L WILD-TYPE" 

Clustering(51) Variable = CUX1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUX1 MUTATED        1      2      0      1
  CUX1 WILD-TYPE     11     16     11      9
D51V1, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            1              9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUX1 MUTATED        2      0      0      1      1
  CUX1 WILD-TYPE     10     10      7      6     14
D51V2, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            0              7
  CLUS_4            1              6
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUX1 MUTATED        0     20      0      0      3
  CUX1 WILD-TYPE     56    132     11      5     15
D51V3, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           20            132
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUX1 MUTATED        3      2      8
  CUX1 WILD-TYPE     40     37     45
D51V4, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             37
  CLUS_3            8             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 CLUS_4 CLUS_5 CLUS_6
  CUX1 MUTATED        4      4      4      1      5      1
  CUX1 WILD-TYPE     35     32     33      9     35     23
D51V5, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            4             32
  CLUS_3            4             33
  CLUS_4            1              9
  CLUS_5            5             35
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUX1 MUTATED        4      7      7      1
  CUX1 WILD-TYPE     61     57     33     16
D51V6, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            4             61
  CLUS_2            7             57
  CLUS_3            7             33
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUX1 MUTATED        7     11      5
  CUX1 WILD-TYPE     72     74     78
D51V7, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            7             72
  CLUS_2           11             74
  CLUS_3            5             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
  CUX1 MUTATED        1      2      2      7      7      2      2
  CUX1 WILD-TYPE     43     39     15     26     28     29     44
D51V8, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            1             43
  CLUS_2            2             39
  CLUS_3            2             15
  CLUS_4            7             26
  CLUS_5            7             28
  CLUS_6            2             29
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUX1 MUTATED        5      9      7
  CUX1 WILD-TYPE     64     70     85
D51V9, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            9             70
  CLUS_3            7             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
  CUX1 MUTATED        9      2      7      3
  CUX1 WILD-TYPE     64     41     72     42
D51V10, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            9             64
  CLUS_2            2             41
  CLUS_3            7             72
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUX1 MUTATED        3      2      5
  CUX1 WILD-TYPE     26     17     59
D51V11, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            3             26
  CLUS_2            2             17
  CLUS_3            5             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
  CUX1 MUTATED        4      3      3
  CUX1 WILD-TYPE     29     45     28
D51V12, multiclass
        clus
vv       CUX1 MUTATED CUX1 WILD-TYPE
  CLUS_1            4             29
  CLUS_2            3             45
  CLUS_3            3             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"

Clustering(52) Variable = BCOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        1      2      0      0
  BCOR WILD-TYPE     11     16     11     10
D52V1, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             11
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      0      1      0
  BCOR WILD-TYPE     10     10      7      6     15
D52V2, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            0              7
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     25      0      1      3
  BCOR WILD-TYPE     56    127     11      4     15
D52V3, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0             56
  CLUS_2           25            127
  CLUS_3            0             11
  CLUS_4            1              4
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        1      3     11
  BCOR WILD-TYPE     42     36     42
D52V4, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             42
  CLUS_2            3             36
  CLUS_3           11             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
  BCOR MUTATED        5      6      3      3      5      2
  BCOR WILD-TYPE     34     30     34      7     35     22
D52V5, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            5             34
  CLUS_2            6             30
  CLUS_3            3             34
  CLUS_4            3              7
  CLUS_5            5             35
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        9      6      7      2
  BCOR WILD-TYPE     56     58     33     15
D52V6, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            9             56
  CLUS_2            6             58
  CLUS_3            7             33
  CLUS_4            2             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6     17      7
  BCOR WILD-TYPE     73     68     76
D52V7, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            6             73
  CLUS_2           17             68
  CLUS_3            7             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
  BCOR MUTATED        0      6      2      8      8      2      4
  BCOR WILD-TYPE     44     35     15     25     27     29     42
D52V8, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0             44
  CLUS_2            6             35
  CLUS_3            2             15
  CLUS_4            8             25
  CLUS_5            8             27
  CLUS_6            2             29
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        9     10     10
  BCOR WILD-TYPE     60     69     82
D52V9, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            9             60
  CLUS_2           10             69
  CLUS_3           10             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
  BCOR MUTATED       13      6      6      4
  BCOR WILD-TYPE     60     37     73     41
D52V10, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1           13             60
  CLUS_2            6             37
  CLUS_3            6             73
  CLUS_4            4             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
  BCOR MUTATED        2      4      6
  BCOR WILD-TYPE     27     15     58
D52V11, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             27
  CLUS_2            4             15
  CLUS_3            6             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
  BCOR MUTATED        3      6      3
  BCOR WILD-TYPE     30     42     28
D52V12, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            3             30
  CLUS_2            6             42
  CLUS_3            3             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"

Clustering(53) Variable = WDR45 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR45 MUTATED        2      0      0      0
  WDR45 WILD-TYPE     10     18     11     10
D53V1, multiclass
[1] "Remove cluster labels:" "WDR45 MUTATED"         
clus
  WDR45 MUTATED WDR45 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062      TCGA-AX-A063 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-BK-A0CC 
"WDR45 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR45 MUTATED        0      0      0      2      0
  WDR45 WILD-TYPE     12     10      7      5     15
D53V2, multiclass
[1] "Remove cluster labels:" "WDR45 MUTATED"         
clus
  WDR45 MUTATED WDR45 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062      TCGA-AX-A063 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" "WDR45 WILD-TYPE" 
     TCGA-BK-A0CC 
"WDR45 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR45 MUTATED        1      9      0      0      1
  WDR45 WILD-TYPE     55    143     11      5     17
D53V3, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             1              55
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  WDR45 MUTATED        1      3      2
  WDR45 WILD-TYPE     42     36     51
D53V4, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             3              36
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR45 MUTATED        4      3      0      2      1      0
  WDR45 WILD-TYPE     35     33     37      8     39     24
D53V5, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             3              33
  CLUS_3             0              37
  CLUS_4             2               8
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR45 MUTATED        3      5      2      0
  WDR45 WILD-TYPE     62     59     38     17
D53V6, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             5              59
  CLUS_3             2              38
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR45 MUTATED        4      3      4
  WDR45 WILD-TYPE     75     82     79
D53V7, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             3              82
  CLUS_3             4              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
  WDR45 MUTATED        1      0      0      4      2      2      2
  WDR45 WILD-TYPE     43     41     17     29     33     29     44
D53V8, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             4              29
  CLUS_5             2              33
  CLUS_6             2              29
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR45 MUTATED        1      6      4
  WDR45 WILD-TYPE     68     73     88
D53V9, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             6              73
  CLUS_3             4              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
  WDR45 MUTATED        6      0      4      1
  WDR45 WILD-TYPE     67     43     75     44
D53V10, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             0              43
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR45 MUTATED        0      2      2
  WDR45 WILD-TYPE     29     17     62
D53V11, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             2              17
  CLUS_3             2              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
  WDR45 MUTATED        0      2      2
  WDR45 WILD-TYPE     33     46     29
D53V12, multiclass
        clus
vv       WDR45 MUTATED WDR45 WILD-TYPE
  CLUS_1             0              33
  CLUS_2             2              46
  CLUS_3             2              29
[1] 3 2
[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 = CAB39L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAB39L MUTATED        0      0      2      0
  CAB39L WILD-TYPE     12     18      9     10
D54V1, multiclass
[1] "Remove cluster labels:" "CAB39L MUTATED"        
clus
  CAB39L MUTATED CAB39L WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GU 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BK-A0CC 
"CAB39L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAB39L MUTATED        0      0      1      0      1
  CAB39L WILD-TYPE     12     10      6      7     14
D54V2, multiclass
[1] "Remove cluster labels:" "CAB39L MUTATED"        
clus
  CAB39L MUTATED CAB39L WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GU 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BK-A0CC 
"CAB39L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAB39L MUTATED        0      7      0      0      1
  CAB39L WILD-TYPE     56    145     11      5     17
D54V3, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               56
  CLUS_2              7              145
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  CAB39L MUTATED        0      0      1
  CAB39L WILD-TYPE     43     39     52
D54V4, multiclass
[1] "Remove cluster labels:" "CAB39L MUTATED"        
clus
  CAB39L MUTATED CAB39L WILD-TYPE 
               1              134 
      TCGA-A5-A0GQ       TCGA-A5-A0VO       TCGA-AJ-A23M       TCGA-AP-A059 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A06H 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A0IS       TCGA-AX-A1C7       TCGA-AX-A1C8 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JT 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11E       TCGA-B5-A11F       TCGA-B5-A11G 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A11H       TCGA-B5-A11I       TCGA-B5-A11J       TCGA-B5-A11M 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q       TCGA-B5-A11R 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11V       TCGA-B5-A11W 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A11X       TCGA-B5-A11Y       TCGA-B5-A11Z       TCGA-B5-A121 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VT       TCGA-BG-A0VV 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0VZ       TCGA-BG-A0W1 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BG-A0W2       TCGA-BG-A0YU       TCGA-BG-A0YV       TCGA-BG-A186 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0U5       TCGA-BS-A0U9 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0UL       TCGA-BS-A0V6       TCGA-BS-A0V7 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-BS-A0V8       TCGA-BS-A0WQ       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A0ZP       TCGA-D1-A0ZQ       TCGA-D1-A0ZR       TCGA-D1-A0ZS 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A0ZU       TCGA-D1-A0ZV       TCGA-D1-A0ZZ       TCGA-D1-A101 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A103       TCGA-D1-A15V       TCGA-D1-A15W 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A15X       TCGA-D1-A15Z       TCGA-D1-A160       TCGA-D1-A161 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"CAB39L WILD-TYPE" "CAB39L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CAB39L MUTATED        0      2      0      1      3      0
  CAB39L WILD-TYPE     39     34     37      9     37     24
D54V5, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               39
  CLUS_2              2               34
  CLUS_3              0               37
  CLUS_4              1                9
  CLUS_5              3               37
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      1      2      0
  CAB39L WILD-TYPE     62     63     38     17
D54V6, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              3               62
  CLUS_2              1               63
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      4      2
  CAB39L WILD-TYPE     77     81     81
D54V7, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              2               77
  CLUS_2              4               81
  CLUS_3              2               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
  CAB39L MUTATED        0      3      0      0      4      1      0
  CAB39L WILD-TYPE     44     38     17     33     31     30     46
D54V8, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              0               44
  CLUS_2              3               38
  CLUS_3              0               17
  CLUS_4              0               33
  CLUS_5              4               31
  CLUS_6              1               30
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        2      4      2
  CAB39L WILD-TYPE     67     75     90
D54V9, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               75
  CLUS_3              2               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
  CAB39L MUTATED        3      3      1      1
  CAB39L WILD-TYPE     70     40     78     44
D54V10, multiclass
        clus
vv       CAB39L MUTATED CAB39L WILD-TYPE
  CLUS_1              3               70
  CLUS_2              3               40
  CLUS_3              1               78
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      0      0
  CAB39L WILD-TYPE     29     19     64
D54V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAB39L MUTATED        0      0      0
  CAB39L WILD-TYPE     33     48     31
D54V12, multiclass

Clustering(55) Variable = TAB3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAB3 MUTATED        3      1      0      0
  TAB3 WILD-TYPE      9     17     11     10
D55V1, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            3              9
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      1      2      0
  TAB3 WILD-TYPE     11     10      6      5     15
D55V2, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            2              5
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     17      0      0      1
  TAB3 WILD-TYPE     56    135     11      5     17
D55V3, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           17            135
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  TAB3 MUTATED        2      2      7
  TAB3 WILD-TYPE     41     37     46
D55V4, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             37
  CLUS_3            7             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 CLUS_4 CLUS_5 CLUS_6
  TAB3 MUTATED        4      2      3      1      1      1
  TAB3 WILD-TYPE     35     34     34      9     39     23
D55V5, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            2             34
  CLUS_3            3             34
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      5      4      1
  TAB3 WILD-TYPE     63     59     36     16
D55V6, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            5             59
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4     11      3
  TAB3 WILD-TYPE     75     74     80
D55V7, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            4             75
  CLUS_2           11             74
  CLUS_3            3             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
  TAB3 MUTATED        0      1      1     10      4      0      2
  TAB3 WILD-TYPE     44     40     16     23     31     31     44
D55V8, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4           10             23
  CLUS_5            4             31
  CLUS_6            0             31
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      7      8
  TAB3 WILD-TYPE     66     72     84
D55V9, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            7             72
  CLUS_3            8             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
  TAB3 MUTATED        9      2      5      2
  TAB3 WILD-TYPE     64     41     74     43
D55V10, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            9             64
  CLUS_2            2             41
  CLUS_3            5             74
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      3      3
  TAB3 WILD-TYPE     29     16     61
D55V11, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            3             16
  CLUS_3            3             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
  TAB3 MUTATED        1      2      3
  TAB3 WILD-TYPE     32     46     28
D55V12, multiclass
        clus
vv       TAB3 MUTATED TAB3 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            2             46
  CLUS_3            3             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"

Clustering(56) Variable = OAZ3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OAZ3 MUTATED        2      0      0      0
  OAZ3 WILD-TYPE     10     18     11     10
D56V1, multiclass
[1] "Remove cluster labels:" "OAZ3 MUTATED"          
clus
  OAZ3 MUTATED OAZ3 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BK-A0CC 
"OAZ3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OAZ3 MUTATED        0      0      1      1      0
  OAZ3 WILD-TYPE     12     10      6      6     15
D56V2, multiclass
[1] "Remove cluster labels:" "OAZ3 MUTATED"          
clus
  OAZ3 MUTATED OAZ3 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BK-A0CC 
"OAZ3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OAZ3 MUTATED        1      5      0      0      2
  OAZ3 WILD-TYPE     55    147     11      5     16
D56V3, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            1             55
  CLUS_2            5            147
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  OAZ3 MUTATED        2      0      2
  OAZ3 WILD-TYPE     41     39     51
D56V4, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             39
  CLUS_3            2             51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OAZ3 MUTATED        3      2      0      0      1      0
  OAZ3 WILD-TYPE     36     34     37     10     39     24
D56V5, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            3             36
  CLUS_2            2             34
  CLUS_3            0             37
  CLUS_4            0             10
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OAZ3 MUTATED        2      4      0      0
  OAZ3 WILD-TYPE     63     60     40     17
D56V6, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4             60
  CLUS_3            0             40
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAZ3 MUTATED        5      3      0
  OAZ3 WILD-TYPE     74     82     83
D56V7, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            5             74
  CLUS_2            3             82
  CLUS_3            0             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
  OAZ3 MUTATED        0      0      1      3      4      0      0
  OAZ3 WILD-TYPE     44     41     16     30     31     31     46
D56V8, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            3             30
  CLUS_5            4             31
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAZ3 MUTATED        2      5      1
  OAZ3 WILD-TYPE     67     74     91
D56V9, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             74
  CLUS_3            1             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
  OAZ3 MUTATED        4      1      1      2
  OAZ3 WILD-TYPE     69     42     78     43
D56V10, multiclass
        clus
vv       OAZ3 MUTATED OAZ3 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            1             42
  CLUS_3            1             78
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAZ3 MUTATED        1      1      0
  OAZ3 WILD-TYPE     28     18     64
D56V11, multiclass
[1] "Remove cluster labels:" "OAZ3 MUTATED"          
clus
  OAZ3 MUTATED OAZ3 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OAZ3 MUTATED        1      0      1
  OAZ3 WILD-TYPE     32     48     30
D56V12, multiclass
[1] "Remove cluster labels:" "OAZ3 MUTATED"          
clus
  OAZ3 MUTATED OAZ3 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"OAZ3 WILD-TYPE" "OAZ3 WILD-TYPE" 

Clustering(57) Variable = AHCYL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCYL1 MUTATED        2      0      0      0
  AHCYL1 WILD-TYPE     10     18     11     10
D57V1, multiclass
[1] "Remove cluster labels:" "AHCYL1 MUTATED"        
clus
  AHCYL1 MUTATED AHCYL1 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BK-A0CC 
"AHCYL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHCYL1 MUTATED        0      0      1      1      0
  AHCYL1 WILD-TYPE     12     10      6      6     15
D57V2, multiclass
[1] "Remove cluster labels:" "AHCYL1 MUTATED"        
clus
  AHCYL1 MUTATED AHCYL1 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BK-A0CC 
"AHCYL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHCYL1 MUTATED        0      5      0      0      1
  AHCYL1 WILD-TYPE     56    147     11      5     17
D57V3, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              5              147
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  AHCYL1 MUTATED        1      1      1
  AHCYL1 WILD-TYPE     42     38     52
D57V4, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              1               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
  AHCYL1 MUTATED        3      0      1      0      1      0
  AHCYL1 WILD-TYPE     36     36     36     10     39     24
D57V5, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              0               36
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCYL1 MUTATED        1      3      1      0
  AHCYL1 WILD-TYPE     64     61     39     17
D57V6, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              3               61
  CLUS_3              1               39
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCYL1 MUTATED        2      2      2
  AHCYL1 WILD-TYPE     77     83     81
D57V7, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              2               83
  CLUS_3              2               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
  AHCYL1 MUTATED        0      0      0      4      1      1      0
  AHCYL1 WILD-TYPE     44     41     17     29     34     30     46
D57V8, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              4               29
  CLUS_5              1               34
  CLUS_6              1               30
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCYL1 MUTATED        1      3      2
  AHCYL1 WILD-TYPE     68     76     90
D57V9, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               76
  CLUS_3              2               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
  AHCYL1 MUTATED        2      1      3      0
  AHCYL1 WILD-TYPE     71     42     76     45
D57V10, multiclass
        clus
vv       AHCYL1 MUTATED AHCYL1 WILD-TYPE
  CLUS_1              2               71
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCYL1 MUTATED        0      1      1
  AHCYL1 WILD-TYPE     29     18     63
D57V11, multiclass
[1] "Remove cluster labels:" "AHCYL1 MUTATED"        
clus
  AHCYL1 MUTATED AHCYL1 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHCYL1 MUTATED        0      0      2
  AHCYL1 WILD-TYPE     33     48     29
D57V12, multiclass
[1] "Remove cluster labels:" "AHCYL1 MUTATED"        
clus
  AHCYL1 MUTATED AHCYL1 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"AHCYL1 WILD-TYPE" "AHCYL1 WILD-TYPE" 

Clustering(58) Variable = ATM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATM MUTATED        6      2      1      0
  ATM WILD-TYPE      6     16     10     10
D58V1, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6             6
  CLUS_2           2            16
  CLUS_3           1            10
  CLUS_4           0            10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      2      5      0
  ATM WILD-TYPE     10     10      5      2     15
D58V2, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           2            10
  CLUS_2           0            10
  CLUS_3           2             5
  CLUS_4           5             2
  CLUS_5           0            15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     22      1      1      3
  ATM WILD-TYPE     56    130     10      4     15
D58V3, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0            56
  CLUS_2          22           130
  CLUS_3           1            10
  CLUS_4           1             4
  CLUS_5           3            15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      2      6
  ATM WILD-TYPE     39     37     47
D58V4, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           4            39
  CLUS_2           2            37
  CLUS_3           6            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 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        6      5      5      3      5      0
  ATM WILD-TYPE     33     31     32      7     35     24
D58V5, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6            33
  CLUS_2           5            31
  CLUS_3           5            32
  CLUS_4           3             7
  CLUS_5           5            35
  CLUS_6           0            24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      9      7      0
  ATM WILD-TYPE     57     55     33     17
D58V6, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8            57
  CLUS_2           9            55
  CLUS_3           7            33
  CLUS_4           0            17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11     10      8
  ATM WILD-TYPE     68     75     75
D58V7, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          11            68
  CLUS_2          10            75
  CLUS_3           8            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
  ATM MUTATED        1      2      3      8     10      3      2
  ATM WILD-TYPE     43     39     14     25     25     28     44
D58V8, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           1            43
  CLUS_2           2            39
  CLUS_3           3            14
  CLUS_4           8            25
  CLUS_5          10            25
  CLUS_6           3            28
  CLUS_7           2            44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        7     12      9
  ATM WILD-TYPE     62     67     83
D58V9, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           7            62
  CLUS_2          12            67
  CLUS_3           9            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
  ATM MUTATED       12      2      9      5
  ATM WILD-TYPE     61     41     70     40
D58V10, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          12            61
  CLUS_2           2            41
  CLUS_3           9            70
  CLUS_4           5            40
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      3      4
  ATM WILD-TYPE     24     16     60
D58V11, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           5            24
  CLUS_2           3            16
  CLUS_3           4            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
  ATM MUTATED        5      2      5
  ATM WILD-TYPE     28     46     26
D58V12, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           5            28
  CLUS_2           2            46
  CLUS_3           5            26
[1] 3 2
[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 = MSH4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH4 MUTATED        2      1      1      0
  MSH4 WILD-TYPE     10     17     10     10
D59V1, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      2      1      0
  MSH4 WILD-TYPE     11     10      5      6     15
D59V2, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     13      0      0      2
  MSH4 WILD-TYPE     56    139     11      5     16
D59V3, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           13            139
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  MSH4 MUTATED        2      1      3
  MSH4 WILD-TYPE     41     38     50
D59V4, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        4      3      1      2      2      1
  MSH4 WILD-TYPE     35     33     36      8     38     23
D59V5, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            3             33
  CLUS_3            1             36
  CLUS_4            2              8
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      5      4      1
  MSH4 WILD-TYPE     62     59     36     16
D59V6, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            5             59
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      4
  MSH4 WILD-TYPE     74     79     79
D59V7, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            5             74
  CLUS_2            6             79
  CLUS_3            4             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
  MSH4 MUTATED        0      1      1      5      5      1      2
  MSH4 WILD-TYPE     44     40     16     28     30     30     44
D59V8, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            5             28
  CLUS_5            5             30
  CLUS_6            1             30
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      7      4
  MSH4 WILD-TYPE     66     72     88
D59V9, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            7             72
  CLUS_3            4             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
  MSH4 MUTATED        8      2      4      0
  MSH4 WILD-TYPE     65     41     75     45
D59V10, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            8             65
  CLUS_2            2             41
  CLUS_3            4             75
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2
  MSH4 WILD-TYPE     29     17     62
D59V11, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            2             17
  CLUS_3            2             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
  MSH4 MUTATED        1      1      2
  MSH4 WILD-TYPE     32     47     29
D59V12, multiclass
        clus
vv       MSH4 MUTATED MSH4 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            1             47
  CLUS_3            2             29
[1] 3 2
[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 = FAM65B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM65B MUTATED        0      1      0      0
  FAM65B WILD-TYPE     12     17     11     10
D60V1, multiclass
[1] "Remove cluster labels:" "FAM65B MUTATED"        
clus
  FAM65B MUTATED FAM65B WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM65B MUTATED        1      0      0      0      0
  FAM65B WILD-TYPE     11     10      7      7     15
D60V2, multiclass
[1] "Remove cluster labels:" "FAM65B MUTATED"        
clus
  FAM65B MUTATED FAM65B WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"FAM65B WILD-TYPE" "FAM65B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM65B MUTATED        0     13      0      0      3
  FAM65B WILD-TYPE     56    139     11      5     15
D60V3, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              0               56
  CLUS_2             13              139
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              3               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65B MUTATED        3      1      6
  FAM65B WILD-TYPE     40     38     47
D60V4, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               38
  CLUS_3              6               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 CLUS_4 CLUS_5 CLUS_6
  FAM65B MUTATED        3      4      3      2      1      0
  FAM65B WILD-TYPE     36     32     34      8     39     24
D60V5, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              3               36
  CLUS_2              4               32
  CLUS_3              3               34
  CLUS_4              2                8
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM65B MUTATED        4      5      4      0
  FAM65B WILD-TYPE     61     59     36     17
D60V6, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              4               61
  CLUS_2              5               59
  CLUS_3              4               36
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65B MUTATED        7      5      4
  FAM65B WILD-TYPE     72     80     79
D60V7, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              7               72
  CLUS_2              5               80
  CLUS_3              4               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
  FAM65B MUTATED        0      1      2      4      6      0      3
  FAM65B WILD-TYPE     44     40     15     29     29     31     43
D60V8, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              2               15
  CLUS_4              4               29
  CLUS_5              6               29
  CLUS_6              0               31
  CLUS_7              3               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65B MUTATED        5      5      5
  FAM65B WILD-TYPE     64     74     87
D60V9, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              5               64
  CLUS_2              5               74
  CLUS_3              5               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
  FAM65B MUTATED        8      0      5      2
  FAM65B WILD-TYPE     65     43     74     43
D60V10, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              8               65
  CLUS_2              0               43
  CLUS_3              5               74
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65B MUTATED        1      2      5
  FAM65B WILD-TYPE     28     17     59
D60V11, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              1               28
  CLUS_2              2               17
  CLUS_3              5               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
  FAM65B MUTATED        2      2      4
  FAM65B WILD-TYPE     31     46     27
D60V12, multiclass
        clus
vv       FAM65B MUTATED FAM65B WILD-TYPE
  CLUS_1              2               31
  CLUS_2              2               46
  CLUS_3              4               27
[1] 3 2
[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 = FN1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FN1 MUTATED        3      3      0      0
  FN1 WILD-TYPE      9     15     11     10
D61V1, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           3             9
  CLUS_2           3            15
  CLUS_3           0            11
  CLUS_4           0            10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FN1 MUTATED        3      0      1      2      0
  FN1 WILD-TYPE      9     10      6      5     15
D61V2, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           3             9
  CLUS_2           0            10
  CLUS_3           1             6
  CLUS_4           2             5
  CLUS_5           0            15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FN1 MUTATED        0     21      1      0      2
  FN1 WILD-TYPE     56    131     10      5     16
D61V3, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           0            56
  CLUS_2          21           131
  CLUS_3           1            10
  CLUS_4           0             5
  CLUS_5           2            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
  FN1 MUTATED        3      2      7
  FN1 WILD-TYPE     40     37     46
D61V4, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           3            40
  CLUS_2           2            37
  CLUS_3           7            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 CLUS_4 CLUS_5 CLUS_6
  FN1 MUTATED        7      4      3      2      2      1
  FN1 WILD-TYPE     32     32     34      8     38     23
D61V5, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           7            32
  CLUS_2           4            32
  CLUS_3           3            34
  CLUS_4           2             8
  CLUS_5           2            38
  CLUS_6           1            23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FN1 MUTATED        6      8      4      1
  FN1 WILD-TYPE     59     56     36     16
D61V6, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           6            59
  CLUS_2           8            56
  CLUS_3           4            36
  CLUS_4           1            16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FN1 MUTATED        7     12      5
  FN1 WILD-TYPE     72     73     78
D61V7, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           7            72
  CLUS_2          12            73
  CLUS_3           5            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
  FN1 MUTATED        0      0      2     10      8      2      2
  FN1 WILD-TYPE     44     41     15     23     27     29     44
D61V8, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           0            44
  CLUS_2           0            41
  CLUS_3           2            15
  CLUS_4          10            23
  CLUS_5           8            27
  CLUS_6           2            29
  CLUS_7           2            44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FN1 MUTATED        4     10      9
  FN1 WILD-TYPE     65     69     83
D61V9, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           4            65
  CLUS_2          10            69
  CLUS_3           9            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
  FN1 MUTATED       14      1      6      2
  FN1 WILD-TYPE     59     42     73     43
D61V10, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1          14            59
  CLUS_2           1            42
  CLUS_3           6            73
  CLUS_4           2            43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FN1 MUTATED        1      3      6
  FN1 WILD-TYPE     28     16     58
D61V11, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           1            28
  CLUS_2           3            16
  CLUS_3           6            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
  FN1 MUTATED        2      2      6
  FN1 WILD-TYPE     31     46     25
D61V12, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           2            31
  CLUS_2           2            46
  CLUS_3           6            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"

Clustering(62) Variable = JAKMIP2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JAKMIP2 MUTATED        2      1      0      0
  JAKMIP2 WILD-TYPE     10     17     11     10
D62V1, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               2                10
  CLUS_2               1                17
  CLUS_3               0                11
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAKMIP2 MUTATED        1      0      1      1      0
  JAKMIP2 WILD-TYPE     11     10      6      6     15
D62V2, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               1                11
  CLUS_2               0                10
  CLUS_3               1                 6
  CLUS_4               1                 6
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  JAKMIP2 MUTATED        0      9      1      0      2
  JAKMIP2 WILD-TYPE     56    143     10      5     16
D62V3, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               0                56
  CLUS_2               9               143
  CLUS_3               1                10
  CLUS_4               0                 5
  CLUS_5               2                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
  JAKMIP2 MUTATED        2      0      2
  JAKMIP2 WILD-TYPE     41     39     51
D62V4, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                39
  CLUS_3               2                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  JAKMIP2 MUTATED        3      4      0      2      1      0
  JAKMIP2 WILD-TYPE     36     32     37      8     39     24
D62V5, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               3                36
  CLUS_2               4                32
  CLUS_3               0                37
  CLUS_4               2                 8
  CLUS_5               1                39
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  JAKMIP2 MUTATED        3      5      2      0
  JAKMIP2 WILD-TYPE     62     59     38     17
D62V6, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               3                62
  CLUS_2               5                59
  CLUS_3               2                38
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  JAKMIP2 MUTATED        7      4      1
  JAKMIP2 WILD-TYPE     72     81     82
D62V7, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               7                72
  CLUS_2               4                81
  CLUS_3               1                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
  JAKMIP2 MUTATED        0      0      2      3      6      0      1
  JAKMIP2 WILD-TYPE     44     41     15     30     29     31     45
D62V8, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               2                15
  CLUS_4               3                30
  CLUS_5               6                29
  CLUS_6               0                31
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  JAKMIP2 MUTATED        4      6      1
  JAKMIP2 WILD-TYPE     65     73     91
D62V9, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               6                73
  CLUS_3               1                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
  JAKMIP2 MUTATED        7      1      2      1
  JAKMIP2 WILD-TYPE     66     42     77     44
D62V10, multiclass
        clus
vv       JAKMIP2 MUTATED JAKMIP2 WILD-TYPE
  CLUS_1               7                66
  CLUS_2               1                42
  CLUS_3               2                77
  CLUS_4               1                44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  JAKMIP2 MUTATED        0      2      0
  JAKMIP2 WILD-TYPE     29     17     64
D62V11, multiclass
[1] "Remove cluster labels:" "JAKMIP2 MUTATED"       
clus
  JAKMIP2 MUTATED JAKMIP2 WILD-TYPE 
                2               110 
       TCGA-A5-A0GB        TCGA-A5-A0GN        TCGA-A5-A0GQ        TCGA-AJ-A23M 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-AP-A0LF        TCGA-AP-A1DQ        TCGA-AX-A064        TCGA-AX-A06H 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-AX-A06L        TCGA-AX-A1C8        TCGA-AX-A1CP        TCGA-AX-A2H5 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-AX-A2HF        TCGA-B5-A0JR        TCGA-B5-A0JT        TCGA-B5-A0K8 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A11G        TCGA-B5-A11H        TCGA-B5-A11J        TCGA-B5-A11M 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q        TCGA-B5-A11R 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11W        TCGA-B5-A11Z 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A121        TCGA-B5-A1MU        TCGA-B5-A1MY        TCGA-BG-A0VV 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0YV        TCGA-BG-A186 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B        TCGA-BG-A18C 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC        TCGA-BK-A139 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0UA        TCGA-BS-A0V6 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BS-A0V7        TCGA-BS-A0V8        TCGA-D1-A0ZN        TCGA-D1-A0ZO 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A0ZQ        TCGA-D1-A0ZS        TCGA-D1-A102        TCGA-D1-A15V 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A15W        TCGA-D1-A15X        TCGA-D1-A160        TCGA-D1-A161 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167        TCGA-D1-A168 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D        TCGA-D1-A16E 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I        TCGA-D1-A16J 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q        TCGA-D1-A16R 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A16S        TCGA-D1-A16X        TCGA-D1-A16Y        TCGA-D1-A174 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  JAKMIP2 MUTATED        1      0      1
  JAKMIP2 WILD-TYPE     32     48     30
D62V12, multiclass
[1] "Remove cluster labels:" "JAKMIP2 MUTATED"       
clus
  JAKMIP2 MUTATED JAKMIP2 WILD-TYPE 
                2               110 
       TCGA-A5-A0GB        TCGA-A5-A0GN        TCGA-A5-A0GQ        TCGA-AJ-A23M 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-AP-A0LF        TCGA-AP-A1DQ        TCGA-AX-A064        TCGA-AX-A06H 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-AX-A06L        TCGA-AX-A1C8        TCGA-AX-A1CP        TCGA-AX-A2H5 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-AX-A2HF        TCGA-B5-A0JR        TCGA-B5-A0JT        TCGA-B5-A0K8 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A11G        TCGA-B5-A11H        TCGA-B5-A11J        TCGA-B5-A11M 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q        TCGA-B5-A11R 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11W        TCGA-B5-A11Z 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-B5-A121        TCGA-B5-A1MU        TCGA-B5-A1MY        TCGA-BG-A0VV 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0YV        TCGA-BG-A186 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B        TCGA-BG-A18C 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC        TCGA-BK-A139 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0UA        TCGA-BS-A0V6 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-BS-A0V7        TCGA-BS-A0V8        TCGA-D1-A0ZN        TCGA-D1-A0ZO 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A0ZQ        TCGA-D1-A0ZS        TCGA-D1-A102        TCGA-D1-A15V 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A15W        TCGA-D1-A15X        TCGA-D1-A160        TCGA-D1-A161 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167        TCGA-D1-A168 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D        TCGA-D1-A16E 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I        TCGA-D1-A16J 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q        TCGA-D1-A16R 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A16S        TCGA-D1-A16X        TCGA-D1-A16Y        TCGA-D1-A174 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"JAKMIP2 WILD-TYPE" "JAKMIP2 WILD-TYPE" 

Clustering(63) Variable = WBP4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WBP4 MUTATED        0      1      0      0
  WBP4 WILD-TYPE     12     17     11     10
D63V1, multiclass
[1] "Remove cluster labels:" "WBP4 MUTATED"          
clus
  WBP4 MUTATED WBP4 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WBP4 MUTATED        1      0      0      0      0
  WBP4 WILD-TYPE     11     10      7      7     15
D63V2, multiclass
[1] "Remove cluster labels:" "WBP4 MUTATED"          
clus
  WBP4 MUTATED WBP4 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"WBP4 WILD-TYPE" "WBP4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WBP4 MUTATED        0      7      0      0      1
  WBP4 WILD-TYPE     56    145     11      5     17
D63V3, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            7            145
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  WBP4 MUTATED        1      0      5
  WBP4 WILD-TYPE     42     39     48
D63V4, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            0             39
  CLUS_3            5             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 CLUS_4 CLUS_5 CLUS_6
  WBP4 MUTATED        1      4      2      0      0      1
  WBP4 WILD-TYPE     38     32     35     10     40     23
D63V5, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            4             32
  CLUS_3            2             35
  CLUS_4            0             10
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WBP4 MUTATED        3      2      2      1
  WBP4 WILD-TYPE     62     62     38     16
D63V6, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            2             62
  CLUS_3            2             38
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WBP4 MUTATED        4      3      1
  WBP4 WILD-TYPE     75     82     82
D63V7, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            3             82
  CLUS_3            1             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
  WBP4 MUTATED        0      0      0      4      4      0      0
  WBP4 WILD-TYPE     44     41     17     29     31     31     46
D63V8, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            0             17
  CLUS_4            4             29
  CLUS_5            4             31
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WBP4 MUTATED        0      5      2
  WBP4 WILD-TYPE     69     74     90
D63V9, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            5             74
  CLUS_3            2             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
  WBP4 MUTATED        5      0      1      1
  WBP4 WILD-TYPE     68     43     78     44
D63V10, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            5             68
  CLUS_2            0             43
  CLUS_3            1             78
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  WBP4 MUTATED        0      1      2
  WBP4 WILD-TYPE     29     18     62
D63V11, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            1             18
  CLUS_3            2             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
  WBP4 MUTATED        1      0      2
  WBP4 WILD-TYPE     32     48     29
D63V12, multiclass
        clus
vv       WBP4 MUTATED WBP4 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            0             48
  CLUS_3            2             29
[1] 3 2
[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 = RASA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASA1 MUTATED        3      2      1      0
  RASA1 WILD-TYPE      9     16     10     10
D64V1, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             2              16
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASA1 MUTATED        2      0      1      2      1
  RASA1 WILD-TYPE     10     10      6      5     14
D64V2, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             2               5
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASA1 MUTATED        1     20      0      0      1
  RASA1 WILD-TYPE     55    132     11      5     17
D64V3, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            20             132
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  RASA1 MUTATED        3      1      5
  RASA1 WILD-TYPE     40     38     48
D64V4, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  RASA1 MUTATED        4      3      3      3      4      1
  RASA1 WILD-TYPE     35     33     34      7     36     23
D64V5, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             3              33
  CLUS_3             3              34
  CLUS_4             3               7
  CLUS_5             4              36
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASA1 MUTATED        5      7      5      1
  RASA1 WILD-TYPE     60     57     35     16
D64V6, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             5              60
  CLUS_2             7              57
  CLUS_3             5              35
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA1 MUTATED        7      9      6
  RASA1 WILD-TYPE     72     76     77
D64V7, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             7              72
  CLUS_2             9              76
  CLUS_3             6              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
  RASA1 MUTATED        2      2      2      7      4      1      4
  RASA1 WILD-TYPE     42     39     15     26     31     30     42
D64V8, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             2              42
  CLUS_2             2              39
  CLUS_3             2              15
  CLUS_4             7              26
  CLUS_5             4              31
  CLUS_6             1              30
  CLUS_7             4              42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA1 MUTATED        4      9      8
  RASA1 WILD-TYPE     65     70     84
D64V9, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             9              70
  CLUS_3             8              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
  RASA1 MUTATED        8      2      6      5
  RASA1 WILD-TYPE     65     41     73     40
D64V10, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             8              65
  CLUS_2             2              41
  CLUS_3             6              73
  CLUS_4             5              40
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RASA1 MUTATED        3      2      3
  RASA1 WILD-TYPE     26     17     61
D64V11, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             3              26
  CLUS_2             2              17
  CLUS_3             3              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
  RASA1 MUTATED        3      1      4
  RASA1 WILD-TYPE     30     47     27
D64V12, multiclass
        clus
vv       RASA1 MUTATED RASA1 WILD-TYPE
  CLUS_1             3              30
  CLUS_2             1              47
  CLUS_3             4              27
[1] 3 2
[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 = ALPK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALPK2 MUTATED        4      1      0      0
  ALPK2 WILD-TYPE      8     17     11     10
D65V1, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4               8
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      1      3      0
  ALPK2 WILD-TYPE     11     10      6      4     15
D65V2, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             3               4
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     18      0      0      1
  ALPK2 WILD-TYPE     56    134     11      5     17
D65V3, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            18             134
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  ALPK2 MUTATED        3      1      5
  ALPK2 WILD-TYPE     40     38     48
D65V4, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  ALPK2 MUTATED        4      3      3      2      4      1
  ALPK2 WILD-TYPE     35     33     34      8     36     23
D65V5, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             3              33
  CLUS_3             3              34
  CLUS_4             2               8
  CLUS_5             4              36
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      6      6      1
  ALPK2 WILD-TYPE     61     58     34     16
D65V6, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             6              58
  CLUS_3             6              34
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5     10      4
  ALPK2 WILD-TYPE     74     75     79
D65V7, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             5              74
  CLUS_2            10              75
  CLUS_3             4              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
  ALPK2 MUTATED        0      2      3      7      4      2      1
  ALPK2 WILD-TYPE     44     39     14     26     31     29     45
D65V8, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             2              39
  CLUS_3             3              14
  CLUS_4             7              26
  CLUS_5             4              31
  CLUS_6             2              29
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      8      7
  ALPK2 WILD-TYPE     65     71     85
D65V9, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             8              71
  CLUS_3             7              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
  ALPK2 MUTATED        8      4      5      2
  ALPK2 WILD-TYPE     65     39     74     43
D65V10, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             8              65
  CLUS_2             4              39
  CLUS_3             5              74
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      3
  ALPK2 WILD-TYPE     26     17     61
D65V11, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             3              26
  CLUS_2             2              17
  CLUS_3             3              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
  ALPK2 MUTATED        3      2      3
  ALPK2 WILD-TYPE     30     46     28
D65V12, multiclass
        clus
vv       ALPK2 MUTATED ALPK2 WILD-TYPE
  CLUS_1             3              30
  CLUS_2             2              46
  CLUS_3             3              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"

Clustering(66) Variable = POLE MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  POLE MUTATED        2      3      1      0
  POLE WILD-TYPE     10     15     10     10
D66V1, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            2             10
  CLUS_2            3             15
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      1      0
  POLE WILD-TYPE      9     10      5      6     15
D66V2, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            3              9
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1     23      0      0      2
  POLE WILD-TYPE     55    129     11      5     16
D66V3, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            1             55
  CLUS_2           23            129
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  POLE MUTATED        2      6      6
  POLE WILD-TYPE     41     33     47
D66V4, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            2             41
  CLUS_2            6             33
  CLUS_3            6             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 CLUS_4 CLUS_5 CLUS_6
  POLE MUTATED        6      6      5      2      2      1
  POLE WILD-TYPE     33     30     32      8     38     23
D66V5, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            6             33
  CLUS_2            6             30
  CLUS_3            5             32
  CLUS_4            2              8
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        9      8      4      1
  POLE WILD-TYPE     56     56     36     16
D66V6, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            9             56
  CLUS_2            8             56
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9     10      8
  POLE WILD-TYPE     70     75     75
D66V7, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            9             70
  CLUS_2           10             75
  CLUS_3            8             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
  POLE MUTATED        2      1      1      8      8      3      4
  POLE WILD-TYPE     42     40     16     25     27     28     42
D66V8, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            2             42
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            8             25
  CLUS_5            8             27
  CLUS_6            3             28
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        6     11      9
  POLE WILD-TYPE     63     68     83
D66V9, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            6             63
  CLUS_2           11             68
  CLUS_3            9             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
  POLE MUTATED       13      2      7      4
  POLE WILD-TYPE     60     41     72     41
D66V10, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1           13             60
  CLUS_2            2             41
  CLUS_3            7             72
  CLUS_4            4             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
  POLE MUTATED        2      4      4
  POLE WILD-TYPE     27     15     60
D66V11, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            2             27
  CLUS_2            4             15
  CLUS_3            4             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
  POLE MUTATED        3      3      4
  POLE WILD-TYPE     30     45     27
D66V12, multiclass
        clus
vv       POLE MUTATED POLE WILD-TYPE
  CLUS_1            3             30
  CLUS_2            3             45
  CLUS_3            4             27
[1] 3 2
[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 = KIF20B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF20B MUTATED        3      1      1      0
  KIF20B WILD-TYPE      9     17     10     10
D67V1, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              3                9
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF20B MUTATED        1      0      2      2      0
  KIF20B WILD-TYPE     11     10      5      5     15
D67V2, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              2                5
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF20B MUTATED        0     19      0      0      2
  KIF20B WILD-TYPE     56    133     11      5     16
D67V3, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              0               56
  CLUS_2             19              133
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  KIF20B MUTATED        3      3      6
  KIF20B WILD-TYPE     40     36     47
D67V4, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              3               40
  CLUS_2              3               36
  CLUS_3              6               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 CLUS_4 CLUS_5 CLUS_6
  KIF20B MUTATED        5      5      4      1      1      2
  KIF20B WILD-TYPE     34     31     33      9     39     22
D67V5, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              5               34
  CLUS_2              5               31
  CLUS_3              4               33
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              2               22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF20B MUTATED        6      6      4      2
  KIF20B WILD-TYPE     59     58     36     15
D67V6, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              6               59
  CLUS_2              6               58
  CLUS_3              4               36
  CLUS_4              2               15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF20B MUTATED        7      9      5
  KIF20B WILD-TYPE     72     76     78
D67V7, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              7               72
  CLUS_2              9               76
  CLUS_3              5               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
  KIF20B MUTATED        0      1      1      8      7      3      1
  KIF20B WILD-TYPE     44     40     16     25     28     28     45
D67V8, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              1               16
  CLUS_4              8               25
  CLUS_5              7               28
  CLUS_6              3               28
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF20B MUTATED        5      9      6
  KIF20B WILD-TYPE     64     70     86
D67V9, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              5               64
  CLUS_2              9               70
  CLUS_3              6               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
  KIF20B MUTATED       12      2      4      2
  KIF20B WILD-TYPE     61     41     75     43
D67V10, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1             12               61
  CLUS_2              2               41
  CLUS_3              4               75
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF20B MUTATED        1      3      4
  KIF20B WILD-TYPE     28     16     60
D67V11, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              1               28
  CLUS_2              3               16
  CLUS_3              4               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
  KIF20B MUTATED        2      2      4
  KIF20B WILD-TYPE     31     46     27
D67V12, multiclass
        clus
vv       KIF20B MUTATED KIF20B WILD-TYPE
  CLUS_1              2               31
  CLUS_2              2               46
  CLUS_3              4               27
[1] 3 2
[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 = C14ORF166B MUTATION ANALYSIS
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF166B MUTATED        0      1      0      0
  C14ORF166B WILD-TYPE     12     17     11     10
D68V1, multiclass
[1] "Remove cluster labels:" "C14ORF166B MUTATED"    
clus
  C14ORF166B MUTATED C14ORF166B WILD-TYPE 
                   1                   50 
          TCGA-A5-A0G3           TCGA-A5-A0G5           TCGA-A5-A0GA 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-A5-A0GB           TCGA-A5-A0GE           TCGA-A5-A0GH 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-A5-A0GM           TCGA-A5-A0GP           TCGA-A5-A0GU 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A051           TCGA-AP-A052           TCGA-AP-A053 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A054           TCGA-AP-A05A           TCGA-AP-A05D 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A05H           TCGA-AP-A05J           TCGA-AP-A05N 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A05P           TCGA-AP-A0L8           TCGA-AP-A0L9 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A0LD           TCGA-AP-A0LG           TCGA-AP-A0LH 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A0LJ           TCGA-AP-A0LN           TCGA-AP-A0LT 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A0LV           TCGA-AX-A05S           TCGA-AX-A05T 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A05U           TCGA-AX-A05W           TCGA-AX-A05Y 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A05Z           TCGA-AX-A060           TCGA-AX-A062 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A063           TCGA-AX-A064           TCGA-AX-A06B 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A0IW           TCGA-AX-A0J1           TCGA-B5-A0JR 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-B5-A0JZ           TCGA-B5-A0K0           TCGA-B5-A0K1 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-B5-A0K4           TCGA-BG-A0LW           TCGA-BG-A0MI 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-BK-A0C9           TCGA-BK-A0CC 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF166B MUTATED        1      0      0      0      0
  C14ORF166B WILD-TYPE     11     10      7      7     15
D68V2, multiclass
[1] "Remove cluster labels:" "C14ORF166B MUTATED"    
clus
  C14ORF166B MUTATED C14ORF166B WILD-TYPE 
                   1                   50 
          TCGA-A5-A0G3           TCGA-A5-A0G5           TCGA-A5-A0GA 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-A5-A0GB           TCGA-A5-A0GE           TCGA-A5-A0GH 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-A5-A0GM           TCGA-A5-A0GP           TCGA-A5-A0GU 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A051           TCGA-AP-A052           TCGA-AP-A053 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A054           TCGA-AP-A05A           TCGA-AP-A05D 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A05H           TCGA-AP-A05J           TCGA-AP-A05N 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A05P           TCGA-AP-A0L8           TCGA-AP-A0L9 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A0LD           TCGA-AP-A0LG           TCGA-AP-A0LH 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A0LJ           TCGA-AP-A0LN           TCGA-AP-A0LT 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AP-A0LV           TCGA-AX-A05S           TCGA-AX-A05T 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A05U           TCGA-AX-A05W           TCGA-AX-A05Y 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A05Z           TCGA-AX-A060           TCGA-AX-A062 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A063           TCGA-AX-A064           TCGA-AX-A06B 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-AX-A0IW           TCGA-AX-A0J1           TCGA-B5-A0JR 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-B5-A0JZ           TCGA-B5-A0K0           TCGA-B5-A0K1 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-B5-A0K4           TCGA-BG-A0LW           TCGA-BG-A0MI 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
          TCGA-BK-A0C9           TCGA-BK-A0CC 
"C14ORF166B WILD-TYPE" "C14ORF166B WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C14ORF166B MUTATED        0      8      0      0      2
  C14ORF166B WILD-TYPE     56    144     11      5     16
D68V3, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  0                   56
  CLUS_2                  8                  144
  CLUS_3                  0                   11
  CLUS_4                  0                    5
  CLUS_5                  2                   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
  C14ORF166B MUTATED        0      0      5
  C14ORF166B WILD-TYPE     43     39     48
D68V4, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  0                   43
  CLUS_2                  0                   39
  CLUS_3                  5                   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 CLUS_4 CLUS_5 CLUS_6
  C14ORF166B MUTATED        0      3      2      2      0      1
  C14ORF166B WILD-TYPE     39     33     35      8     40     23
D68V5, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  0                   39
  CLUS_2                  3                   33
  CLUS_3                  2                   35
  CLUS_4                  2                    8
  CLUS_5                  0                   40
  CLUS_6                  1                   23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF166B MUTATED        2      2      3      1
  C14ORF166B WILD-TYPE     63     62     37     16
D68V6, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  2                   63
  CLUS_2                  2                   62
  CLUS_3                  3                   37
  CLUS_4                  1                   16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  C14ORF166B MUTATED        3      4      3
  C14ORF166B WILD-TYPE     76     81     80
D68V7, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  3                   76
  CLUS_2                  4                   81
  CLUS_3                  3                   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
  C14ORF166B MUTATED        0      0      0      3      5      0      2
  C14ORF166B WILD-TYPE     44     41     17     30     30     31     44
D68V8, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  0                   44
  CLUS_2                  0                   41
  CLUS_3                  0                   17
  CLUS_4                  3                   30
  CLUS_5                  5                   30
  CLUS_6                  0                   31
  CLUS_7                  2                   44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  C14ORF166B MUTATED        2      2      5
  C14ORF166B WILD-TYPE     67     77     87
D68V9, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  2                   67
  CLUS_2                  2                   77
  CLUS_3                  5                   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
  C14ORF166B MUTATED        5      0      4      0
  C14ORF166B WILD-TYPE     68     43     75     45
D68V10, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  5                   68
  CLUS_2                  0                   43
  CLUS_3                  4                   75
  CLUS_4                  0                   45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  C14ORF166B MUTATED        0      0      3
  C14ORF166B WILD-TYPE     29     19     61
D68V11, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  0                   29
  CLUS_2                  0                   19
  CLUS_3                  3                   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
  C14ORF166B MUTATED        0      1      2
  C14ORF166B WILD-TYPE     33     47     29
D68V12, multiclass
        clus
vv       C14ORF166B MUTATED C14ORF166B WILD-TYPE
  CLUS_1                  0                   33
  CLUS_2                  1                   47
  CLUS_3                  2                   29
[1] 3 2
[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 = SLC26A8 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A8 MUTATED        1      1      0      0
  SLC26A8 WILD-TYPE     11     17     11     10
D69V1, multiclass
[1] "Remove cluster labels:" "SLC26A8 MUTATED"       
clus
  SLC26A8 MUTATED SLC26A8 WILD-TYPE 
                2                49 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A05H        TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A0L8        TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A0LH        TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A0LV        TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AX-A05W        TCGA-AX-A05Y        TCGA-AX-A060        TCGA-AX-A062 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0        TCGA-B5-A0K1 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI        TCGA-BK-A0C9 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-BK-A0CC 
"SLC26A8 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A8 MUTATED        1      0      1      0      0
  SLC26A8 WILD-TYPE     11     10      6      7     15
D69V2, multiclass
[1] "Remove cluster labels:" "SLC26A8 MUTATED"       
clus
  SLC26A8 MUTATED SLC26A8 WILD-TYPE 
                2                49 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A05H        TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A0L8        TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A0LH        TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AP-A0LV        TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AX-A05W        TCGA-AX-A05Y        TCGA-AX-A060        TCGA-AX-A062 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0        TCGA-B5-A0K1 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI        TCGA-BK-A0C9 
"SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" "SLC26A8 WILD-TYPE" 
       TCGA-BK-A0CC 
"SLC26A8 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC26A8 MUTATED        0     10      0      0      2
  SLC26A8 WILD-TYPE     56    142     11      5     16
D69V3, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              10               142
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               2                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
  SLC26A8 MUTATED        2      1      4
  SLC26A8 WILD-TYPE     41     38     49
D69V4, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                38
  CLUS_3               4                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 CLUS_4 CLUS_5 CLUS_6
  SLC26A8 MUTATED        4      4      2      1      0      0
  SLC26A8 WILD-TYPE     35     32     35      9     40     24
D69V5, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               4                35
  CLUS_2               4                32
  CLUS_3               2                35
  CLUS_4               1                 9
  CLUS_5               0                40
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      4      3      0
  SLC26A8 WILD-TYPE     61     60     37     17
D69V6, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               4                61
  CLUS_2               4                60
  CLUS_3               3                37
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      4      2
  SLC26A8 WILD-TYPE     73     81     81
D69V7, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               6                73
  CLUS_2               4                81
  CLUS_3               2                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
  SLC26A8 MUTATED        0      0      1      4      6      0      1
  SLC26A8 WILD-TYPE     44     41     16     29     29     31     45
D69V8, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               1                16
  CLUS_4               4                29
  CLUS_5               6                29
  CLUS_6               0                31
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        4      6      2
  SLC26A8 WILD-TYPE     65     73     90
D69V9, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               6                73
  CLUS_3               2                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
  SLC26A8 MUTATED        6      1      3      2
  SLC26A8 WILD-TYPE     67     42     76     43
D69V10, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               6                67
  CLUS_2               1                42
  CLUS_3               3                76
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      2      2
  SLC26A8 WILD-TYPE     28     17     62
D69V11, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               2                17
  CLUS_3               2                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
  SLC26A8 MUTATED        2      1      2
  SLC26A8 WILD-TYPE     31     47     29
D69V12, multiclass
        clus
vv       SLC26A8 MUTATED SLC26A8 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               1                47
  CLUS_3               2                29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(70) Variable = ZNF334 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF334 MUTATED        1      1      1      0
  ZNF334 WILD-TYPE     11     17     10     10
D70V1, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      0      0
  ZNF334 WILD-TYPE     11     10      5      7     15
D70V2, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     13      0      0      2
  ZNF334 WILD-TYPE     55    139     11      5     16
D70V3, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             13              139
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF334 MUTATED        4      1      6
  ZNF334 WILD-TYPE     39     38     47
D70V4, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              4               39
  CLUS_2              1               38
  CLUS_3              6               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 CLUS_4 CLUS_5 CLUS_6
  ZNF334 MUTATED        6      4      2      0      1      2
  ZNF334 WILD-TYPE     33     32     35     10     39     22
D70V5, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              6               33
  CLUS_2              4               32
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              2               22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      6      1      2
  ZNF334 WILD-TYPE     59     58     39     15
D70V6, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              6               59
  CLUS_2              6               58
  CLUS_3              1               39
  CLUS_4              2               15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      4      5
  ZNF334 WILD-TYPE     71     81     78
D70V7, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              8               71
  CLUS_2              4               81
  CLUS_3              5               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
  ZNF334 MUTATED        1      0      2      5      5      3      1
  ZNF334 WILD-TYPE     43     41     15     28     30     28     45
D70V8, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              2               15
  CLUS_4              5               28
  CLUS_5              5               30
  CLUS_6              3               28
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      6      6
  ZNF334 WILD-TYPE     65     73     86
D70V9, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              6               73
  CLUS_3              6               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
  ZNF334 MUTATED        7      1      5      3
  ZNF334 WILD-TYPE     66     42     74     42
D70V10, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              1               42
  CLUS_3              5               74
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      2      4
  ZNF334 WILD-TYPE     27     17     60
D70V11, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              2               27
  CLUS_2              2               17
  CLUS_3              4               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
  ZNF334 MUTATED        3      2      3
  ZNF334 WILD-TYPE     30     46     28
D70V12, multiclass
        clus
vv       ZNF334 MUTATED ZNF334 WILD-TYPE
  CLUS_1              3               30
  CLUS_2              2               46
  CLUS_3              3               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"

Clustering(71) Variable = RRAS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRAS2 MUTATED        0      1      0      0
  RRAS2 WILD-TYPE     12     17     11     10
D71V1, multiclass
[1] "Remove cluster labels:" "RRAS2 MUTATED"         
clus
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A062      TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A0IW      TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A0K0      TCGA-B5-A0K1      TCGA-BG-A0LW      TCGA-BG-A0MI 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRAS2 MUTATED        1      0      0      0      0
  RRAS2 WILD-TYPE     11     10      7      7     15
D71V2, multiclass
[1] "Remove cluster labels:" "RRAS2 MUTATED"         
clus
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A062      TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A0IW      TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A0K0      TCGA-B5-A0K1      TCGA-BG-A0LW      TCGA-BG-A0MI 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRAS2 MUTATED        0      2      0      0      2
  RRAS2 WILD-TYPE     56    150     11      5     16
D71V3, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             2             150
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  RRAS2 MUTATED        0      1      1
  RRAS2 WILD-TYPE     43     38     52
D71V4, multiclass
[1] "Remove cluster labels:" "RRAS2 MUTATED"         
clus
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              2             133 
     TCGA-A5-A0GQ      TCGA-A5-A0VO      TCGA-AJ-A23M      TCGA-AP-A059 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A06H 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A06L      TCGA-AX-A0IS      TCGA-AX-A0J0      TCGA-AX-A1C7 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A1C8      TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11E      TCGA-B5-A11F 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11I      TCGA-B5-A11J 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11V 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11X      TCGA-B5-A11Y      TCGA-B5-A11Z 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY      TCGA-BG-A0VT 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0VZ 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A0W1      TCGA-BG-A0W2      TCGA-BG-A0YV      TCGA-BG-A186 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B      TCGA-BG-A18C 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC      TCGA-BK-A139 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0U5      TCGA-BS-A0U9 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0UL      TCGA-BS-A0V6      TCGA-BS-A0V7 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BS-A0V8      TCGA-BS-A0WQ      TCGA-D1-A0ZN      TCGA-D1-A0ZO 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A0ZP      TCGA-D1-A0ZQ      TCGA-D1-A0ZR      TCGA-D1-A0ZS 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A0ZU      TCGA-D1-A0ZV      TCGA-D1-A0ZZ      TCGA-D1-A101 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A103      TCGA-D1-A15V      TCGA-D1-A15W 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A15X      TCGA-D1-A15Z      TCGA-D1-A160      TCGA-D1-A161 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH      TCGA-DI-A1NN 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8      TCGA-EY-A1GS 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW      TCGA-FI-A2EX 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-FI-A2F8 
"RRAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RRAS2 MUTATED        1      0      1      1      0      1
  RRAS2 WILD-TYPE     38     36     36      9     40     23
D71V5, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              36
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRAS2 MUTATED        0      2      2      0
  RRAS2 WILD-TYPE     65     62     38     17
D71V6, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2              62
  CLUS_3             2              38
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAS2 MUTATED        1      0      3
  RRAS2 WILD-TYPE     78     85     80
D71V7, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             1              78
  CLUS_2             0              85
  CLUS_3             3              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
  RRAS2 MUTATED        0      0      1      0      1      0      2
  RRAS2 WILD-TYPE     44     41     16     33     34     31     44
D71V8, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             0              33
  CLUS_5             1              34
  CLUS_6             0              31
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAS2 MUTATED        2      0      2
  RRAS2 WILD-TYPE     67     79     90
D71V9, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             0              79
  CLUS_3             2              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
  RRAS2 MUTATED        1      0      2      1
  RRAS2 WILD-TYPE     72     43     77     44
D71V10, multiclass
        clus
vv       RRAS2 MUTATED RRAS2 WILD-TYPE
  CLUS_1             1              72
  CLUS_2             0              43
  CLUS_3             2              77
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAS2 MUTATED        0      0      1
  RRAS2 WILD-TYPE     29     19     63
D71V11, multiclass
[1] "Remove cluster labels:" "RRAS2 MUTATED"         
clus
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              1             111 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A167      TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16D      TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16I      TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16Q      TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16Y      TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17A      TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17F      TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17M      TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17S      TCGA-D1-A17T      TCGA-D1-A1NU      TCGA-D1-A1NX 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-DI-A0WH      TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-EO-A1Y8      TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-FI-A2EW      TCGA-FI-A2EX      TCGA-FI-A2F8 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RRAS2 MUTATED        0      1      0
  RRAS2 WILD-TYPE     33     47     31
D71V12, multiclass
[1] "Remove cluster labels:" "RRAS2 MUTATED"         
clus
  RRAS2 MUTATED RRAS2 WILD-TYPE 
              1             111 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A167      TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16D      TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16I      TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16Q      TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A16Y      TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17A      TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17F      TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17M      TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-D1-A17S      TCGA-D1-A17T      TCGA-D1-A1NU      TCGA-D1-A1NX 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-DI-A0WH      TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-EO-A1Y8      TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 
     TCGA-FI-A2EW      TCGA-FI-A2EX      TCGA-FI-A2F8 
"RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" "RRAS2 WILD-TYPE" 

Clustering(72) Variable = PPM1N MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1N MUTATED        2      1      0      0
  PPM1N WILD-TYPE     10     17     11     10
D72V1, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1N MUTATED        1      0      1      1      0
  PPM1N WILD-TYPE     11     10      6      6     15
D72V2, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1N MUTATED        0      7      0      0      0
  PPM1N WILD-TYPE     56    145     11      5     18
D72V3, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             0              56
  CLUS_2             7             145
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  PPM1N MUTATED        1      1      1
  PPM1N WILD-TYPE     42     38     52
D72V4, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              38
  CLUS_3             1              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
  PPM1N MUTATED        2      0      1      1      2      1
  PPM1N WILD-TYPE     37     36     36      9     38     23
D72V5, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              36
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1N MUTATED        1      3      2      1
  PPM1N WILD-TYPE     64     61     38     16
D72V6, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             1              64
  CLUS_2             3              61
  CLUS_3             2              38
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1N MUTATED        2      5      0
  PPM1N WILD-TYPE     77     80     83
D72V7, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             2              77
  CLUS_2             5              80
  CLUS_3             0              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
  PPM1N MUTATED        1      0      0      5      1      0      0
  PPM1N WILD-TYPE     43     41     17     28     34     31     46
D72V8, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             5              28
  CLUS_5             1              34
  CLUS_6             0              31
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1N MUTATED        1      5      1
  PPM1N WILD-TYPE     68     74     91
D72V9, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             1              68
  CLUS_2             5              74
  CLUS_3             1              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
  PPM1N MUTATED        4      1      0      2
  PPM1N WILD-TYPE     69     42     79     43
D72V10, multiclass
        clus
vv       PPM1N MUTATED PPM1N WILD-TYPE
  CLUS_1             4              69
  CLUS_2             1              42
  CLUS_3             0              79
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1N MUTATED        1      1      0
  PPM1N WILD-TYPE     28     18     64
D72V11, multiclass
[1] "Remove cluster labels:" "PPM1N MUTATED"         
clus
  PPM1N MUTATED PPM1N WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A1DQ      TCGA-AX-A064 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A174 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1N MUTATED        1      0      1
  PPM1N WILD-TYPE     32     48     30
D72V12, multiclass
[1] "Remove cluster labels:" "PPM1N MUTATED"         
clus
  PPM1N MUTATED PPM1N WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A1DQ      TCGA-AX-A064 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A174 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"PPM1N WILD-TYPE" "PPM1N WILD-TYPE" 

Clustering(73) Variable = FCN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FCN1 MUTATED        0      0      0      1
  FCN1 WILD-TYPE     12     18     11      9
D73V1, multiclass
[1] "Remove cluster labels:" "FCN1 MUTATED"          
clus
  FCN1 MUTATED FCN1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AX-A062     TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AX-A0IW     TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-B5-A0K0     TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FCN1 MUTATED        0      0      0      0      1
  FCN1 WILD-TYPE     12     10      7      7     14
D73V2, multiclass
[1] "Remove cluster labels:" "FCN1 MUTATED"          
clus
  FCN1 MUTATED FCN1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AX-A062     TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-AX-A0IW     TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-B5-A0K0     TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"FCN1 WILD-TYPE" "FCN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FCN1 MUTATED        0      7      0      0      1
  FCN1 WILD-TYPE     56    145     11      5     17
D73V3, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            7            145
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  FCN1 MUTATED        2      0      3
  FCN1 WILD-TYPE     41     39     50
D73V4, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             39
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FCN1 MUTATED        2      1      1      1      0      1
  FCN1 WILD-TYPE     37     35     36      9     40     23
D73V5, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            1             35
  CLUS_3            1             36
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FCN1 MUTATED        1      3      1      1
  FCN1 WILD-TYPE     64     61     39     16
D73V6, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            3             61
  CLUS_3            1             39
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FCN1 MUTATED        4      3      1
  FCN1 WILD-TYPE     75     82     82
D73V7, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            3             82
  CLUS_3            1             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
  FCN1 MUTATED        0      1      1      3      2      0      1
  FCN1 WILD-TYPE     44     40     16     30     33     31     45
D73V8, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            3             30
  CLUS_5            2             33
  CLUS_6            0             31
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FCN1 MUTATED        2      3      3
  FCN1 WILD-TYPE     67     76     89
D73V9, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             76
  CLUS_3            3             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
  FCN1 MUTATED        4      1      2      1
  FCN1 WILD-TYPE     69     42     77     44
D73V10, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            1             42
  CLUS_3            2             77
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FCN1 MUTATED        0      2      1
  FCN1 WILD-TYPE     29     17     63
D73V11, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            2             17
  CLUS_3            1             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
  FCN1 MUTATED        1      0      2
  FCN1 WILD-TYPE     32     48     29
D73V12, multiclass
        clus
vv       FCN1 MUTATED FCN1 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            0             48
  CLUS_3            2             29
[1] 3 2
[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 = TIAL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIAL1 MUTATED        2      1      0      0
  TIAL1 WILD-TYPE     10     17     11     10
D74V1, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      0
  TIAL1 WILD-TYPE     11     10      7      5     15
D74V2, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             0               7
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0      9      0      0      1
  TIAL1 WILD-TYPE     56    143     11      5     17
D74V3, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  TIAL1 MUTATED        1      0      5
  TIAL1 WILD-TYPE     42     39     48
D74V4, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             0              39
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  TIAL1 MUTATED        1      1      4      1      1      1
  TIAL1 WILD-TYPE     38     35     33      9     39     23
D74V5, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              35
  CLUS_3             4              33
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      4      4      1
  TIAL1 WILD-TYPE     65     60     36     16
D74V6, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4              60
  CLUS_3             4              36
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      7      1
  TIAL1 WILD-TYPE     77     78     82
D74V7, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              77
  CLUS_2             7              78
  CLUS_3             1              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
  TIAL1 MUTATED        0      0      1      6      3      0      0
  TIAL1 WILD-TYPE     44     41     16     27     32     31     46
D74V8, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             6              27
  CLUS_5             3              32
  CLUS_6             0              31
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      5
  TIAL1 WILD-TYPE     67     76     87
D74V9, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              76
  CLUS_3             5              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
  TIAL1 MUTATED        7      0      2      1
  TIAL1 WILD-TYPE     66     43     77     44
D74V10, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             0              43
  CLUS_3             2              77
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      2
  TIAL1 WILD-TYPE     28     17     62
D74V11, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             2              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
  TIAL1 MUTATED        1      1      3
  TIAL1 WILD-TYPE     32     47     28
D74V12, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             1              47
  CLUS_3             3              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"

Clustering(75) Variable = PSMC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMC4 MUTATED        0      1      1      0
  PSMC4 WILD-TYPE     12     17     10     10
D75V1, multiclass
[1] "Remove cluster labels:" "PSMC4 MUTATED"         
clus
  PSMC4 MUTATED PSMC4 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GU 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H      TCGA-AP-A05J 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8      TCGA-AP-A0L9 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH      TCGA-AP-A0LJ 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV      TCGA-AX-A05S 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W      TCGA-AX-A05Y 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-BK-A0CC 
"PSMC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMC4 MUTATED        1      0      1      0      0
  PSMC4 WILD-TYPE     11     10      6      7     15
D75V2, multiclass
[1] "Remove cluster labels:" "PSMC4 MUTATED"         
clus
  PSMC4 MUTATED PSMC4 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GU 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H      TCGA-AP-A05J 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8      TCGA-AP-A0L9 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH      TCGA-AP-A0LJ 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV      TCGA-AX-A05S 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W      TCGA-AX-A05Y 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" "PSMC4 WILD-TYPE" 
     TCGA-BK-A0CC 
"PSMC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMC4 MUTATED        0      9      0      0      1
  PSMC4 WILD-TYPE     56    143     11      5     17
D75V3, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  PSMC4 MUTATED        2      0      3
  PSMC4 WILD-TYPE     41     39     50
D75V4, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              39
  CLUS_3             3              50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PSMC4 MUTATED        3      3      0      1      0      1
  PSMC4 WILD-TYPE     36     33     37      9     40     23
D75V5, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             3              33
  CLUS_3             0              37
  CLUS_4             1               9
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMC4 MUTATED        4      2      1      1
  PSMC4 WILD-TYPE     61     62     39     16
D75V6, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             2              62
  CLUS_3             1              39
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMC4 MUTATED        6      2      3
  PSMC4 WILD-TYPE     73     83     80
D75V7, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             2              83
  CLUS_3             3              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
  PSMC4 MUTATED        0      0      1      1      6      1      2
  PSMC4 WILD-TYPE     44     41     16     32     29     30     44
D75V8, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             1              32
  CLUS_5             6              29
  CLUS_6             1              30
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMC4 MUTATED        4      3      3
  PSMC4 WILD-TYPE     65     76     89
D75V9, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              76
  CLUS_3             3              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
  PSMC4 MUTATED        6      0      3      1
  PSMC4 WILD-TYPE     67     43     76     44
D75V10, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMC4 MUTATED        1      2      1
  PSMC4 WILD-TYPE     28     17     63
D75V11, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             1              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
  PSMC4 MUTATED        2      1      1
  PSMC4 WILD-TYPE     31     47     30
D75V12, multiclass
        clus
vv       PSMC4 MUTATED PSMC4 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             1              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(76) Variable = MFAP5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFAP5 MUTATED        1      0      0      0
  MFAP5 WILD-TYPE     11     18     11     10
D76V1, multiclass
[1] "Remove cluster labels:" "MFAP5 MUTATED"         
clus
  MFAP5 MUTATED MFAP5 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFAP5 MUTATED        0      0      1      0      0
  MFAP5 WILD-TYPE     12     10      6      7     15
D76V2, multiclass
[1] "Remove cluster labels:" "MFAP5 MUTATED"         
clus
  MFAP5 MUTATED MFAP5 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"MFAP5 WILD-TYPE" "MFAP5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFAP5 MUTATED        0      8      0      0      1
  MFAP5 WILD-TYPE     56    144     11      5     17
D76V3, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             8             144
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  MFAP5 MUTATED        3      1      1
  MFAP5 WILD-TYPE     40     38     52
D76V4, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             1              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
  MFAP5 MUTATED        5      2      0      2      0      0
  MFAP5 WILD-TYPE     34     34     37      8     40     24
D76V5, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             5              34
  CLUS_2             2              34
  CLUS_3             0              37
  CLUS_4             2               8
  CLUS_5             0              40
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFAP5 MUTATED        4      3      2      0
  MFAP5 WILD-TYPE     61     61     38     17
D76V6, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             3              61
  CLUS_3             2              38
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFAP5 MUTATED        4      3      2
  MFAP5 WILD-TYPE     75     82     81
D76V7, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             3              82
  CLUS_3             2              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
  MFAP5 MUTATED        0      0      3      2      3      1      0
  MFAP5 WILD-TYPE     44     41     14     31     32     30     46
D76V8, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             3              14
  CLUS_4             2              31
  CLUS_5             3              32
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFAP5 MUTATED        4      4      1
  MFAP5 WILD-TYPE     65     75     91
D76V9, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              75
  CLUS_3             1              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
  MFAP5 MUTATED        4      1      1      3
  MFAP5 WILD-TYPE     69     42     78     42
D76V10, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             1              42
  CLUS_3             1              78
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MFAP5 MUTATED        1      2      0
  MFAP5 WILD-TYPE     28     17     64
D76V11, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             0              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
  MFAP5 MUTATED        2      0      1
  MFAP5 WILD-TYPE     31     48     30
D76V12, multiclass
        clus
vv       MFAP5 MUTATED MFAP5 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             0              48
  CLUS_3             1              30
[1] 3 2
[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 = RAB3GAP1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB3GAP1 MUTATED        1      1      1      0
  RAB3GAP1 WILD-TYPE     11     17     10     10
D77V1, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                 17
  CLUS_3                1                 10
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB3GAP1 MUTATED        1      0      2      0      0
  RAB3GAP1 WILD-TYPE     11     10      5      7     15
D77V2, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                 10
  CLUS_3                2                  5
  CLUS_4                0                  7
  CLUS_5                0                 15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAB3GAP1 MUTATED        0     12      2      0      2
  RAB3GAP1 WILD-TYPE     56    140      9      5     16
D77V3, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                0                 56
  CLUS_2               12                140
  CLUS_3                2                  9
  CLUS_4                0                  5
  CLUS_5                2                 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
  RAB3GAP1 MUTATED        1      2      5
  RAB3GAP1 WILD-TYPE     42     37     48
D77V4, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                2                 37
  CLUS_3                5                 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 CLUS_4 CLUS_5 CLUS_6
  RAB3GAP1 MUTATED        4      5      3      0      0      2
  RAB3GAP1 WILD-TYPE     35     31     34     10     40     22
D77V5, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                4                 35
  CLUS_2                5                 31
  CLUS_3                3                 34
  CLUS_4                0                 10
  CLUS_5                0                 40
  CLUS_6                2                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAB3GAP1 MUTATED        5      5      2      2
  RAB3GAP1 WILD-TYPE     60     59     38     15
D77V6, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                5                 60
  CLUS_2                5                 59
  CLUS_3                2                 38
  CLUS_4                2                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAB3GAP1 MUTATED        6      5      5
  RAB3GAP1 WILD-TYPE     73     80     78
D77V7, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                6                 73
  CLUS_2                5                 80
  CLUS_3                5                 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
  RAB3GAP1 MUTATED        0      0      3      5      5      2      1
  RAB3GAP1 WILD-TYPE     44     41     14     28     30     29     45
D77V8, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                0                 44
  CLUS_2                0                 41
  CLUS_3                3                 14
  CLUS_4                5                 28
  CLUS_5                5                 30
  CLUS_6                2                 29
  CLUS_7                1                 45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAB3GAP1 MUTATED        6      4      5
  RAB3GAP1 WILD-TYPE     63     75     87
D77V9, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                6                 63
  CLUS_2                4                 75
  CLUS_3                5                 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
  RAB3GAP1 MUTATED        8      1      5      1
  RAB3GAP1 WILD-TYPE     65     42     74     44
D77V10, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                8                 65
  CLUS_2                1                 42
  CLUS_3                5                 74
  CLUS_4                1                 44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  RAB3GAP1 MUTATED        1      2      2
  RAB3GAP1 WILD-TYPE     28     17     62
D77V11, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                2                 17
  CLUS_3                2                 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
  RAB3GAP1 MUTATED        2      0      3
  RAB3GAP1 WILD-TYPE     31     48     28
D77V12, multiclass
        clus
vv       RAB3GAP1 MUTATED RAB3GAP1 WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                0                 48
  CLUS_3                3                 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"

Clustering(78) Variable = MSH6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH6 MUTATED        2      1      0      0
  MSH6 WILD-TYPE     10     17     11     10
D78V1, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      1      1      0
  MSH6 WILD-TYPE     11     10      6      6     15
D78V2, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1     12      0      0      4
  MSH6 WILD-TYPE     55    140     11      5     14
D78V3, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            1             55
  CLUS_2           12            140
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            4             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1      4
  MSH6 WILD-TYPE     41     38     49
D78V4, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  MSH6 MUTATED        4      5      1      2      1      2
  MSH6 WILD-TYPE     35     31     36      8     39     22
D78V5, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            5             31
  CLUS_3            1             36
  CLUS_4            2              8
  CLUS_5            1             39
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      6      3      1
  MSH6 WILD-TYPE     60     58     37     16
D78V6, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            5             60
  CLUS_2            6             58
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      7      3
  MSH6 WILD-TYPE     72     78     80
D78V7, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            7             72
  CLUS_2            7             78
  CLUS_3            3             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
  MSH6 MUTATED        1      0      2      6      7      0      1
  MSH6 WILD-TYPE     43     41     15     27     28     31     45
D78V8, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            1             43
  CLUS_2            0             41
  CLUS_3            2             15
  CLUS_4            6             27
  CLUS_5            7             28
  CLUS_6            0             31
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        5      7      4
  MSH6 WILD-TYPE     64     72     88
D78V9, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            5             64
  CLUS_2            7             72
  CLUS_3            4             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
  MSH6 MUTATED        9      1      3      3
  MSH6 WILD-TYPE     64     42     76     42
D78V10, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            9             64
  CLUS_2            1             42
  CLUS_3            3             76
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      2      2
  MSH6 WILD-TYPE     29     17     62
D78V11, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            2             17
  CLUS_3            2             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
  MSH6 MUTATED        1      1      2
  MSH6 WILD-TYPE     32     47     29
D78V12, multiclass
        clus
vv       MSH6 MUTATED MSH6 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            1             47
  CLUS_3            2             29
[1] 3 2
[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 = BMP2K MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMP2K MUTATED        3      1      0      0
  BMP2K WILD-TYPE      9     17     11     10
D79V1, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             3               9
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMP2K MUTATED        1      0      1      2      0
  BMP2K WILD-TYPE     11     10      6      5     15
D79V2, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMP2K MUTATED        0     12      0      0      1
  BMP2K WILD-TYPE     56    140     11      5     17
D79V3, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             0              56
  CLUS_2            12             140
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  BMP2K MUTATED        1      1      5
  BMP2K WILD-TYPE     42     38     48
D79V4, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  BMP2K MUTATED        4      2      2      0      2      1
  BMP2K WILD-TYPE     35     34     35     10     38     23
D79V5, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             4              35
  CLUS_2             2              34
  CLUS_3             2              35
  CLUS_4             0              10
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMP2K MUTATED        4      4      2      1
  BMP2K WILD-TYPE     61     60     38     16
D79V6, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4              60
  CLUS_3             2              38
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMP2K MUTATED        2      7      4
  BMP2K WILD-TYPE     77     78     79
D79V7, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             2              77
  CLUS_2             7              78
  CLUS_3             4              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
  BMP2K MUTATED        0      1      1      6      3      1      1
  BMP2K WILD-TYPE     44     40     16     27     32     30     45
D79V8, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             6              27
  CLUS_5             3              32
  CLUS_6             1              30
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMP2K MUTATED        1      6      6
  BMP2K WILD-TYPE     68     73     86
D79V9, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              68
  CLUS_2             6              73
  CLUS_3             6              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
  BMP2K MUTATED        7      1      4      1
  BMP2K WILD-TYPE     66     42     75     44
D79V10, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             7              66
  CLUS_2             1              42
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMP2K MUTATED        1      1      4
  BMP2K WILD-TYPE     28     18     60
D79V11, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              28
  CLUS_2             1              18
  CLUS_3             4              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
  BMP2K MUTATED        1      3      2
  BMP2K WILD-TYPE     32     45     29
D79V12, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              32
  CLUS_2             3              45
  CLUS_3             2              29
[1] 3 2
[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 = ZNF606 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF606 MUTATED        3      1      0      0
  ZNF606 WILD-TYPE      9     17     11     10
D80V1, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              3                9
  CLUS_2              1               17
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF606 MUTATED        1      0      1      2      0
  ZNF606 WILD-TYPE     11     10      6      5     15
D80V2, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              2                5
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF606 MUTATED        0     14      0      0      2
  ZNF606 WILD-TYPE     56    138     11      5     16
D80V3, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             14              138
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF606 MUTATED        1      1      6
  ZNF606 WILD-TYPE     42     38     47
D80V4, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              6               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 CLUS_4 CLUS_5 CLUS_6
  ZNF606 MUTATED        3      5      3      0      2      1
  ZNF606 WILD-TYPE     36     31     34     10     38     23
D80V5, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              5               31
  CLUS_3              3               34
  CLUS_4              0               10
  CLUS_5              2               38
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF606 MUTATED        6      5      2      1
  ZNF606 WILD-TYPE     59     59     38     16
D80V6, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              6               59
  CLUS_2              5               59
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF606 MUTATED        6      6      4
  ZNF606 WILD-TYPE     73     79     79
D80V7, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              6               73
  CLUS_2              6               79
  CLUS_3              4               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
  ZNF606 MUTATED        1      0      2      6      5      0      2
  ZNF606 WILD-TYPE     43     41     15     27     30     31     44
D80V8, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              2               15
  CLUS_4              6               27
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              2               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF606 MUTATED        4      6      5
  ZNF606 WILD-TYPE     65     73     87
D80V9, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              6               73
  CLUS_3              5               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
  ZNF606 MUTATED        7      1      5      2
  ZNF606 WILD-TYPE     66     42     74     43
D80V10, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              1               42
  CLUS_3              5               74
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF606 MUTATED        1      1      3
  ZNF606 WILD-TYPE     28     18     61
D80V11, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              3               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
  ZNF606 MUTATED        2      1      2
  ZNF606 WILD-TYPE     31     47     29
D80V12, multiclass
        clus
vv       ZNF606 MUTATED ZNF606 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[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 = ZNF263 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF263 MUTATED        2      0      0      0
  ZNF263 WILD-TYPE     10     18     11     10
D81V1, multiclass
[1] "Remove cluster labels:" "ZNF263 MUTATED"        
clus
  ZNF263 MUTATED ZNF263 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GE 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP       TCGA-A5-A0GU 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF263 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF263 MUTATED        0      0      1      1      0
  ZNF263 WILD-TYPE     12     10      6      6     15
D81V2, multiclass
[1] "Remove cluster labels:" "ZNF263 MUTATED"        
clus
  ZNF263 MUTATED ZNF263 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GE 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP       TCGA-A5-A0GU 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" "ZNF263 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF263 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF263 MUTATED        0      7      0      0      0
  ZNF263 WILD-TYPE     56    145     11      5     18
D81V3, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              7              145
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  ZNF263 MUTATED        1      0      3
  ZNF263 WILD-TYPE     42     39     50
D81V4, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF263 MUTATED        3      1      2      0      1      0
  ZNF263 WILD-TYPE     36     35     35     10     39     24
D81V5, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              1               35
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF263 MUTATED        2      3      2      0
  ZNF263 WILD-TYPE     63     61     38     17
D81V6, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              3               61
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF263 MUTATED        1      4      2
  ZNF263 WILD-TYPE     78     81     81
D81V7, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              1               78
  CLUS_2              4               81
  CLUS_3              2               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
  ZNF263 MUTATED        0      0      0      3      2      2      0
  ZNF263 WILD-TYPE     44     41     17     30     33     29     46
D81V8, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              3               30
  CLUS_5              2               33
  CLUS_6              2               29
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF263 MUTATED        0      3      4
  ZNF263 WILD-TYPE     69     76     88
D81V9, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               76
  CLUS_3              4               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
  ZNF263 MUTATED        3      1      3      0
  ZNF263 WILD-TYPE     70     42     76     45
D81V10, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              3               70
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF263 MUTATED        1      1      2
  ZNF263 WILD-TYPE     28     18     62
D81V11, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              2               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
  ZNF263 MUTATED        1      0      3
  ZNF263 WILD-TYPE     32     48     28
D81V12, multiclass
        clus
vv       ZNF263 MUTATED ZNF263 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              0               48
  CLUS_3              3               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"

Clustering(82) Variable = CHEK2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHEK2 MUTATED        1      2      0      0
  CHEK2 WILD-TYPE     11     16     11     10
D82V1, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             2              16
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      1      0      0
  CHEK2 WILD-TYPE     10     10      6      7     15
D82V2, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             0               7
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     10      0      0      2
  CHEK2 WILD-TYPE     55    142     11      5     16
D82V3, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  CHEK2 MUTATED        2      0      4
  CHEK2 WILD-TYPE     41     39     49
D82V4, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              39
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  CHEK2 MUTATED        2      5      1      1      1      0
  CHEK2 WILD-TYPE     37     31     36      9     39     24
D82V5, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             5              31
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      3      3      0
  CHEK2 WILD-TYPE     61     61     37     17
D82V6, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             3              61
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      4      2
  CHEK2 WILD-TYPE     72     81     81
D82V7, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             7              72
  CLUS_2             4              81
  CLUS_3             2              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
  CHEK2 MUTATED        1      1      0      3      7      1      0
  CHEK2 WILD-TYPE     43     40     17     30     28     30     46
D82V8, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             1              40
  CLUS_3             0              17
  CLUS_4             3              30
  CLUS_5             7              28
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        2      7      3
  CHEK2 WILD-TYPE     67     72     89
D82V9, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             7              72
  CLUS_3             3              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
  CHEK2 MUTATED        5      2      4      1
  CHEK2 WILD-TYPE     68     41     75     44
D82V10, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             5              68
  CLUS_2             2              41
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      2
  CHEK2 WILD-TYPE     28     18     62
D82V11, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             1              18
  CLUS_3             2              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
  CHEK2 MUTATED        0      2      2
  CHEK2 WILD-TYPE     33     46     29
D82V12, multiclass
        clus
vv       CHEK2 MUTATED CHEK2 WILD-TYPE
  CLUS_1             0              33
  CLUS_2             2              46
  CLUS_3             2              29
[1] 3 2
[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 = MGA MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGA MUTATED        3      2      0      1
  MGA WILD-TYPE      9     16     11      9
D83V1, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           3             9
  CLUS_2           2            16
  CLUS_3           0            11
  CLUS_4           1             9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      1      2      1
  MGA WILD-TYPE     10     10      6      5     14
D83V2, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           2            10
  CLUS_2           0            10
  CLUS_3           1             6
  CLUS_4           2             5
  CLUS_5           1            14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3     20      1      0      2
  MGA WILD-TYPE     53    132     10      5     16
D83V3, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           3            53
  CLUS_2          20           132
  CLUS_3           1            10
  CLUS_4           0             5
  CLUS_5           2            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
  MGA MUTATED        5      3      5
  MGA WILD-TYPE     38     36     48
D83V4, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            38
  CLUS_2           3            36
  CLUS_3           5            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 CLUS_4 CLUS_5 CLUS_6
  MGA MUTATED        8      6      1      2      3      2
  MGA WILD-TYPE     31     30     36      8     37     22
D83V5, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           8            31
  CLUS_2           6            30
  CLUS_3           1            36
  CLUS_4           2             8
  CLUS_5           3            37
  CLUS_6           2            22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11      7      2      2
  MGA WILD-TYPE     54     57     38     15
D83V6, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          11            54
  CLUS_2           7            57
  CLUS_3           2            38
  CLUS_4           2            15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     11      3
  MGA WILD-TYPE     67     74     80
D83V7, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          12            67
  CLUS_2          11            74
  CLUS_3           3            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
  MGA MUTATED        3      1      3      7      9      1      2
  MGA WILD-TYPE     41     40     14     26     26     30     44
D83V8, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           3            41
  CLUS_2           1            40
  CLUS_3           3            14
  CLUS_4           7            26
  CLUS_5           9            26
  CLUS_6           1            30
  CLUS_7           2            44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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       10      9      5
  MGA WILD-TYPE     59     70     87
D83V9, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          10            59
  CLUS_2           9            70
  CLUS_3           5            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
  MGA MUTATED       14      1      4      5
  MGA WILD-TYPE     59     42     75     40
D83V10, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          14            59
  CLUS_2           1            42
  CLUS_3           4            75
  CLUS_4           5            40
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      3      3
  MGA WILD-TYPE     24     16     61
D83V11, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            24
  CLUS_2           3            16
  CLUS_3           3            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
  MGA MUTATED        5      1      5
  MGA WILD-TYPE     28     47     26
D83V12, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            28
  CLUS_2           1            47
  CLUS_3           5            26
[1] 3 2
[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 = RHBDD3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHBDD3 MUTATED        1      0      0      0
  RHBDD3 WILD-TYPE     11     18     11     10
D84V1, multiclass
[1] "Remove cluster labels:" "RHBDD3 MUTATED"        
clus
  RHBDD3 MUTATED RHBDD3 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHBDD3 MUTATED        0      0      0      1      0
  RHBDD3 WILD-TYPE     12     10      7      6     15
D84V2, multiclass
[1] "Remove cluster labels:" "RHBDD3 MUTATED"        
clus
  RHBDD3 MUTATED RHBDD3 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHBDD3 MUTATED        0      4      0      0      0
  RHBDD3 WILD-TYPE     56    148     11      5     18
D84V3, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              4              148
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  RHBDD3 MUTATED        0      0      3
  RHBDD3 WILD-TYPE     43     39     50
D84V4, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              0               39
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RHBDD3 MUTATED        0      1      1      0      1      1
  RHBDD3 WILD-TYPE     39     35     36     10     39     23
D84V5, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               35
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHBDD3 MUTATED        1      1      1      1
  RHBDD3 WILD-TYPE     64     63     39     16
D84V6, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              1               63
  CLUS_3              1               39
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RHBDD3 MUTATED        1      3      0
  RHBDD3 WILD-TYPE     78     82     83
D84V7, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              1               78
  CLUS_2              3               82
  CLUS_3              0               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
  RHBDD3 MUTATED        0      0      0      3      1      0      0
  RHBDD3 WILD-TYPE     44     41     17     30     34     31     46
D84V8, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              3               30
  CLUS_5              1               34
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RHBDD3 MUTATED        2      1      1
  RHBDD3 WILD-TYPE     67     78     91
D84V9, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               78
  CLUS_3              1               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
  RHBDD3 MUTATED        4      0      0      0
  RHBDD3 WILD-TYPE     69     43     79     45
D84V10, multiclass
        clus
vv       RHBDD3 MUTATED RHBDD3 WILD-TYPE
  CLUS_1              4               69
  CLUS_2              0               43
  CLUS_3              0               79
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RHBDD3 MUTATED        1      0      1
  RHBDD3 WILD-TYPE     28     19     63
D84V11, multiclass
[1] "Remove cluster labels:" "RHBDD3 MUTATED"        
clus
  RHBDD3 MUTATED RHBDD3 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RHBDD3 MUTATED        1      0      1
  RHBDD3 WILD-TYPE     32     48     30
D84V12, multiclass
[1] "Remove cluster labels:" "RHBDD3 MUTATED"        
clus
  RHBDD3 MUTATED RHBDD3 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"RHBDD3 WILD-TYPE" "RHBDD3 WILD-TYPE" 

Clustering(85) Variable = TAP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAP1 MUTATED        1      1      0      0
  TAP1 WILD-TYPE     11     17     11     10
D85V1, multiclass
[1] "Remove cluster labels:" "TAP1 MUTATED"          
clus
  TAP1 MUTATED TAP1 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H     TCGA-AP-A05J 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8     TCGA-AP-A0L9 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BK-A0CC 
"TAP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAP1 MUTATED        1      0      0      1      0
  TAP1 WILD-TYPE     11     10      7      6     15
D85V2, multiclass
[1] "Remove cluster labels:" "TAP1 MUTATED"          
clus
  TAP1 MUTATED TAP1 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H     TCGA-AP-A05J 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8     TCGA-AP-A0L9 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BK-A0CC 
"TAP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAP1 MUTATED        0      6      0      0      2
  TAP1 WILD-TYPE     56    146     11      5     16
D85V3, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            6            146
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  TAP1 MUTATED        1      0      2
  TAP1 WILD-TYPE     42     39     51
D85V4, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            0             39
  CLUS_3            2             51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAP1 MUTATED        1      3      1      0      1      1
  TAP1 WILD-TYPE     38     33     36     10     39     23
D85V5, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            1             36
  CLUS_4            0             10
  CLUS_5            1             39
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAP1 MUTATED        2      3      1      1
  TAP1 WILD-TYPE     63     61     39     16
D85V6, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3             61
  CLUS_3            1             39
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAP1 MUTATED        4      4      0
  TAP1 WILD-TYPE     75     81     83
D85V7, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            4             81
  CLUS_3            0             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
  TAP1 MUTATED        0      0      1      3      4      0      0
  TAP1 WILD-TYPE     44     41     16     30     31     31     46
D85V8, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            3             30
  CLUS_5            4             31
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAP1 MUTATED        2      4      1
  TAP1 WILD-TYPE     67     75     91
D85V9, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            4             75
  CLUS_3            1             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
  TAP1 MUTATED        6      0      1      0
  TAP1 WILD-TYPE     67     43     78     45
D85V10, multiclass
        clus
vv       TAP1 MUTATED TAP1 WILD-TYPE
  CLUS_1            6             67
  CLUS_2            0             43
  CLUS_3            1             78
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAP1 MUTATED        0      1      0
  TAP1 WILD-TYPE     29     18     64
D85V11, multiclass
[1] "Remove cluster labels:" "TAP1 MUTATED"          
clus
  TAP1 MUTATED TAP1 WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TAP1 MUTATED        1      0      0
  TAP1 WILD-TYPE     32     48     31
D85V12, multiclass
[1] "Remove cluster labels:" "TAP1 MUTATED"          
clus
  TAP1 MUTATED TAP1 WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"TAP1 WILD-TYPE" "TAP1 WILD-TYPE" "TAP1 WILD-TYPE" 

Clustering(86) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        1      3      2      0
  RB1 WILD-TYPE     11     15      9     10
D86V1, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            11
  CLUS_2           3            15
  CLUS_3           2             9
  CLUS_4           0            10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        5      0      0      1      0
  RB1 WILD-TYPE      7     10      7      6     15
D86V2, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           5             7
  CLUS_2           0            10
  CLUS_3           0             7
  CLUS_4           1             6
  CLUS_5           0            15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2     16      0      0      2
  RB1 WILD-TYPE     54    136     11      5     16
D86V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            54
  CLUS_2          16           136
  CLUS_3           0            11
  CLUS_4           0             5
  CLUS_5           2            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
  RB1 MUTATED        2      1      6
  RB1 WILD-TYPE     41     38     47
D86V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            38
  CLUS_3           6            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 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED        3      6      2      3      3      1
  RB1 WILD-TYPE     36     30     35      7     37     23
D86V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            36
  CLUS_2           6            30
  CLUS_3           2            35
  CLUS_4           3             7
  CLUS_5           3            37
  CLUS_6           1            23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      4      6      1
  RB1 WILD-TYPE     58     60     34     16
D86V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           7            58
  CLUS_2           4            60
  CLUS_3           6            34
  CLUS_4           1            16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9      6      5
  RB1 WILD-TYPE     70     79     78
D86V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           9            70
  CLUS_2           6            79
  CLUS_3           5            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
  RB1 MUTATED        2      0      0      5     10      2      1
  RB1 WILD-TYPE     42     41     17     28     25     29     45
D86V8, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            42
  CLUS_2           0            41
  CLUS_3           0            17
  CLUS_4           5            28
  CLUS_5          10            25
  CLUS_6           2            29
  CLUS_7           1            45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3     10      6
  RB1 WILD-TYPE     66     69     86
D86V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            66
  CLUS_2          10            69
  CLUS_3           6            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
  RB1 MUTATED       11      0      5      3
  RB1 WILD-TYPE     62     43     74     42
D86V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          11            62
  CLUS_2           0            43
  CLUS_3           5            74
  CLUS_4           3            42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      2
  RB1 WILD-TYPE     28     18     62
D86V11, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            28
  CLUS_2           1            18
  CLUS_3           2            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
  RB1 MUTATED        2      0      2
  RB1 WILD-TYPE     31     48     29
D86V12, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            31
  CLUS_2           0            48
  CLUS_3           2            29
[1] 3 2
[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 = SLC1A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC1A3 MUTATED        0      1      0      0
  SLC1A3 WILD-TYPE     12     17     11     10
D87V1, multiclass
[1] "Remove cluster labels:" "SLC1A3 MUTATED"        
clus
  SLC1A3 MUTATED SLC1A3 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC1A3 MUTATED        1      0      0      0      0
  SLC1A3 WILD-TYPE     11     10      7      7     15
D87V2, multiclass
[1] "Remove cluster labels:" "SLC1A3 MUTATED"        
clus
  SLC1A3 MUTATED SLC1A3 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"SLC1A3 WILD-TYPE" "SLC1A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC1A3 MUTATED        2      8      0      0      2
  SLC1A3 WILD-TYPE     54    144     11      5     16
D87V3, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              2               54
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  SLC1A3 MUTATED        3      1      2
  SLC1A3 WILD-TYPE     40     38     51
D87V4, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               38
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC1A3 MUTATED        2      4      1      2      0      0
  SLC1A3 WILD-TYPE     37     32     36      8     40     24
D87V5, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              4               32
  CLUS_3              1               36
  CLUS_4              2                8
  CLUS_5              0               40
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC1A3 MUTATED        4      2      3      0
  SLC1A3 WILD-TYPE     61     62     37     17
D87V6, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              2               62
  CLUS_3              3               37
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC1A3 MUTATED        7      2      3
  SLC1A3 WILD-TYPE     72     83     80
D87V7, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              7               72
  CLUS_2              2               83
  CLUS_3              3               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
  SLC1A3 MUTATED        1      0      2      2      5      0      2
  SLC1A3 WILD-TYPE     43     41     15     31     30     31     44
D87V8, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              2               15
  CLUS_4              2               31
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              2               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC1A3 MUTATED        6      3      3
  SLC1A3 WILD-TYPE     63     76     89
D87V9, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              6               63
  CLUS_2              3               76
  CLUS_3              3               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
  SLC1A3 MUTATED        6      0      4      2
  SLC1A3 WILD-TYPE     67     43     75     43
D87V10, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              6               67
  CLUS_2              0               43
  CLUS_3              4               75
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC1A3 MUTATED        2      2      2
  SLC1A3 WILD-TYPE     27     17     62
D87V11, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              2               27
  CLUS_2              2               17
  CLUS_3              2               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
  SLC1A3 MUTATED        3      1      2
  SLC1A3 WILD-TYPE     30     47     29
D87V12, multiclass
        clus
vv       SLC1A3 MUTATED SLC1A3 WILD-TYPE
  CLUS_1              3               30
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(88) Variable = ATAD5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD5 MUTATED        1      1      0      0
  ATAD5 WILD-TYPE     11     17     11     10
D88V1, multiclass
[1] "Remove cluster labels:" "ATAD5 MUTATED"         
clus
  ATAD5 MUTATED ATAD5 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H      TCGA-AP-A05J 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8      TCGA-AP-A0L9 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH      TCGA-AP-A0LJ 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV      TCGA-AX-A05S 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W      TCGA-AX-A05Y 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-BK-A0CC 
"ATAD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD5 MUTATED        1      0      0      1      0
  ATAD5 WILD-TYPE     11     10      7      6     15
D88V2, multiclass
[1] "Remove cluster labels:" "ATAD5 MUTATED"         
clus
  ATAD5 MUTATED ATAD5 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H      TCGA-AP-A05J 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8      TCGA-AP-A0L9 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH      TCGA-AP-A0LJ 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV      TCGA-AX-A05S 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W      TCGA-AX-A05Y 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" "ATAD5 WILD-TYPE" 
     TCGA-BK-A0CC 
"ATAD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD5 MUTATED        1     14      0      0      2
  ATAD5 WILD-TYPE     55    138     11      5     16
D88V3, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            14             138
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  ATAD5 MUTATED        3      1      6
  ATAD5 WILD-TYPE     40     38     47
D88V4, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             6              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 CLUS_4 CLUS_5 CLUS_6
  ATAD5 MUTATED        2      4      2      2      2      1
  ATAD5 WILD-TYPE     37     32     35      8     38     23
D88V5, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             4              32
  CLUS_3             2              35
  CLUS_4             2               8
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      5      4      0
  ATAD5 WILD-TYPE     61     59     36     17
D88V6, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             5              59
  CLUS_3             4              36
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      5      5
  ATAD5 WILD-TYPE     72     80     78
D88V7, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             7              72
  CLUS_2             5              80
  CLUS_3             5              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
  ATAD5 MUTATED        0      1      1      4      7      1      3
  ATAD5 WILD-TYPE     44     40     16     29     28     30     43
D88V8, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             4              29
  CLUS_5             7              28
  CLUS_6             1              30
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      6      7
  ATAD5 WILD-TYPE     66     73     85
D88V9, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             6              73
  CLUS_3             7              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
  ATAD5 MUTATED        7      1      6      2
  ATAD5 WILD-TYPE     66     42     73     43
D88V10, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             1              42
  CLUS_3             6              73
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      2      4
  ATAD5 WILD-TYPE     28     17     60
D88V11, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             4              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
  ATAD5 MUTATED        1      2      4
  ATAD5 WILD-TYPE     32     46     27
D88V12, multiclass
        clus
vv       ATAD5 MUTATED ATAD5 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             2              46
  CLUS_3             4              27
[1] 3 2
[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 = ALG8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALG8 MUTATED        1      1      1      0
  ALG8 WILD-TYPE     11     17     10     10
D89V1, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG8 MUTATED        2      0      1      0      0
  ALG8 WILD-TYPE     10     10      6      7     15
D89V2, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            0              7
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ALG8 MUTATED        1      8      0      0      1
  ALG8 WILD-TYPE     55    144     11      5     17
D89V3, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            1             55
  CLUS_2            8            144
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  ALG8 MUTATED        0      0      4
  ALG8 WILD-TYPE     43     39     49
D89V4, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            0             43
  CLUS_2            0             39
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  ALG8 MUTATED        1      3      2      1      1      2
  ALG8 WILD-TYPE     38     33     35      9     39     22
D89V5, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            2             35
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALG8 MUTATED        2      4      2      2
  ALG8 WILD-TYPE     63     60     38     15
D89V6, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4             60
  CLUS_3            2             38
  CLUS_4            2             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG8 MUTATED        2      4      4
  ALG8 WILD-TYPE     77     81     79
D89V7, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            2             77
  CLUS_2            4             81
  CLUS_3            4             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
  ALG8 MUTATED        0      1      1      3      2      2      1
  ALG8 WILD-TYPE     44     40     16     30     33     29     45
D89V8, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            3             30
  CLUS_5            2             33
  CLUS_6            2             29
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG8 MUTATED        2      3      5
  ALG8 WILD-TYPE     67     76     87
D89V9, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            3             76
  CLUS_3            5             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
  ALG8 MUTATED        4      2      3      1
  ALG8 WILD-TYPE     69     41     76     44
D89V10, multiclass
        clus
vv       ALG8 MUTATED ALG8 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            2             41
  CLUS_3            3             76
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG8 MUTATED        1      0      1
  ALG8 WILD-TYPE     28     19     63
D89V11, multiclass
[1] "Remove cluster labels:" "ALG8 MUTATED"          
clus
  ALG8 MUTATED ALG8 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A0ZN     TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17H 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALG8 MUTATED        1      1      0
  ALG8 WILD-TYPE     32     47     31
D89V12, multiclass
[1] "Remove cluster labels:" "ALG8 MUTATED"          
clus
  ALG8 MUTATED ALG8 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A0ZN     TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17H 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"ALG8 WILD-TYPE" "ALG8 WILD-TYPE" 

Clustering(90) Variable = TIGD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIGD4 MUTATED        1      2      1      0
  TIGD4 WILD-TYPE     11     16     10     10
D90V1, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             2              16
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIGD4 MUTATED        2      0      1      0      1
  TIGD4 WILD-TYPE     10     10      6      7     14
D90V2, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             0               7
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIGD4 MUTATED        1     10      0      0      2
  TIGD4 WILD-TYPE     55    142     11      5     16
D90V3, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  TIGD4 MUTATED        2      1      3
  TIGD4 WILD-TYPE     41     38     50
D90V4, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             3              50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TIGD4 MUTATED        4      5      1      2      0      0
  TIGD4 WILD-TYPE     35     31     36      8     40     24
D90V5, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             5              31
  CLUS_3             1              36
  CLUS_4             2               8
  CLUS_5             0              40
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIGD4 MUTATED        5      3      4      0
  TIGD4 WILD-TYPE     60     61     36     17
D90V6, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             5              60
  CLUS_2             3              61
  CLUS_3             4              36
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIGD4 MUTATED        6      5      2
  TIGD4 WILD-TYPE     73     80     81
D90V7, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             5              80
  CLUS_3             2              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
  TIGD4 MUTATED        0      0      1      4      6      0      2
  TIGD4 WILD-TYPE     44     41     16     29     29     31     44
D90V8, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             4              29
  CLUS_5             6              29
  CLUS_6             0              31
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIGD4 MUTATED        3      7      2
  TIGD4 WILD-TYPE     66     72     90
D90V9, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             7              72
  CLUS_3             2              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
  TIGD4 MUTATED        6      1      3      2
  TIGD4 WILD-TYPE     67     42     76     43
D90V10, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             1              42
  CLUS_3             3              76
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIGD4 MUTATED        0      2      3
  TIGD4 WILD-TYPE     29     17     61
D90V11, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             2              17
  CLUS_3             3              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
  TIGD4 MUTATED        2      1      2
  TIGD4 WILD-TYPE     31     47     29
D90V12, multiclass
        clus
vv       TIGD4 MUTATED TIGD4 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             2              29
[1] 3 2
[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 = PARG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARG MUTATED        1      1      0      0
  PARG WILD-TYPE     11     17     11     10
D91V1, multiclass
[1] "Remove cluster labels:" "PARG MUTATED"          
clus
  PARG MUTATED PARG WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AX-A062     TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AX-A0IW     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-BK-A0CC 
"PARG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARG MUTATED        1      0      0      1      0
  PARG WILD-TYPE     11     10      7      6     15
D91V2, multiclass
[1] "Remove cluster labels:" "PARG MUTATED"          
clus
  PARG MUTATED PARG WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AX-A062     TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-AX-A0IW     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" "PARG WILD-TYPE" 
    TCGA-BK-A0CC 
"PARG WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PARG MUTATED        0      7      0      1      1
  PARG WILD-TYPE     56    145     11      4     17
D91V3, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            0             56
  CLUS_2            7            145
  CLUS_3            0             11
  CLUS_4            1              4
  CLUS_5            1             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
  PARG MUTATED        2      1      3
  PARG WILD-TYPE     41     38     50
D91V4, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      3      2      1      0      0
  PARG WILD-TYPE     37     33     35      9     40     24
D91V5, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             37
  CLUS_2            3             33
  CLUS_3            2             35
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      2      0
  PARG WILD-TYPE     63     60     38     17
D91V6, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4             60
  CLUS_3            2             38
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      3      1
  PARG WILD-TYPE     74     82     82
D91V7, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            5             74
  CLUS_2            3             82
  CLUS_3            1             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
  PARG MUTATED        0      0      1      3      4      1      0
  PARG WILD-TYPE     44     41     16     30     31     30     46
D91V8, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            3             30
  CLUS_5            4             31
  CLUS_6            1             30
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      5      1
  PARG WILD-TYPE     66     74     91
D91V9, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             74
  CLUS_3            1             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
  PARG MUTATED        6      0      1      2
  PARG WILD-TYPE     67     43     78     43
D91V10, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            6             67
  CLUS_2            0             43
  CLUS_3            1             78
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      0
  PARG WILD-TYPE     27     17     64
D91V11, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             27
  CLUS_2            2             17
  CLUS_3            0             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
  PARG MUTATED        2      0      2
  PARG WILD-TYPE     31     48     29
D91V12, multiclass
        clus
vv       PARG MUTATED PARG WILD-TYPE
  CLUS_1            2             31
  CLUS_2            0             48
  CLUS_3            2             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(92) Variable = FAT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAT1 MUTATED        6      5      0      0
  FAT1 WILD-TYPE      6     13     11     10
D92V1, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            6              6
  CLUS_2            5             13
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAT1 MUTATED        4      1      1      5      0
  FAT1 WILD-TYPE      8      9      6      2     15
D92V2, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            4              8
  CLUS_2            1              9
  CLUS_3            1              6
  CLUS_4            5              2
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAT1 MUTATED        3     31      2      1      3
  FAT1 WILD-TYPE     53    121      9      4     15
D92V3, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            3             53
  CLUS_2           31            121
  CLUS_3            2              9
  CLUS_4            1              4
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED        4      2     15
  FAT1 WILD-TYPE     39     37     38
D92V4, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            2             37
  CLUS_3           15             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 CLUS_4 CLUS_5 CLUS_6
  FAT1 MUTATED        9      9      7      3      3      4
  FAT1 WILD-TYPE     30     27     30      7     37     20
D92V5, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            9             30
  CLUS_2            9             27
  CLUS_3            7             30
  CLUS_4            3              7
  CLUS_5            3             37
  CLUS_6            4             20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAT1 MUTATED       14      7     11      3
  FAT1 WILD-TYPE     51     57     29     14
D92V6, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           14             51
  CLUS_2            7             57
  CLUS_3           11             29
  CLUS_4            3             14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED       11     19     10
  FAT1 WILD-TYPE     68     66     73
D92V7, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           11             68
  CLUS_2           19             66
  CLUS_3           10             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FAT1 MUTATED        2      2      2     13     11      5      5
  FAT1 WILD-TYPE     42     39     15     20     24     26     41
D92V8, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            2             42
  CLUS_2            2             39
  CLUS_3            2             15
  CLUS_4           13             20
  CLUS_5           11             24
  CLUS_6            5             26
  CLUS_7            5             41
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED       10     14     14
  FAT1 WILD-TYPE     59     65     78
D92V9, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           10             59
  CLUS_2           14             65
  CLUS_3           14             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
  FAT1 MUTATED       20      3     12      3
  FAT1 WILD-TYPE     53     40     67     42
D92V10, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1           20             53
  CLUS_2            3             40
  CLUS_3           12             67
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FAT1 MUTATED        4      3     10
  FAT1 WILD-TYPE     25     16     54
D92V11, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            4             25
  CLUS_2            3             16
  CLUS_3           10             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
  FAT1 MUTATED        6      5      6
  FAT1 WILD-TYPE     27     43     25
D92V12, multiclass
        clus
vv       FAT1 MUTATED FAT1 WILD-TYPE
  CLUS_1            6             27
  CLUS_2            5             43
  CLUS_3            6             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"

Clustering(93) Variable = DYM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DYM MUTATED        0      1      1      0
  DYM WILD-TYPE     12     17     10     10
D93V1, multiclass
[1] "Remove cluster labels:" "DYM MUTATED"           
clus
  DYM MUTATED DYM WILD-TYPE 
            2            49 
   TCGA-A5-A0G3    TCGA-A5-A0G5    TCGA-A5-A0GA    TCGA-A5-A0GB    TCGA-A5-A0GE 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-A5-A0GH    TCGA-A5-A0GM    TCGA-A5-A0GU    TCGA-AP-A051    TCGA-AP-A052 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A053    TCGA-AP-A054    TCGA-AP-A05A    TCGA-AP-A05D    TCGA-AP-A05H 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A05J    TCGA-AP-A05N    TCGA-AP-A05P    TCGA-AP-A0L8    TCGA-AP-A0L9 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A0LD    TCGA-AP-A0LG    TCGA-AP-A0LH    TCGA-AP-A0LJ    TCGA-AP-A0LN 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A0LT    TCGA-AP-A0LV    TCGA-AX-A05S    TCGA-AX-A05T    TCGA-AX-A05U 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AX-A05W    TCGA-AX-A05Y    TCGA-AX-A05Z    TCGA-AX-A060    TCGA-AX-A062 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AX-A063    TCGA-AX-A064    TCGA-AX-A06B    TCGA-AX-A0IW    TCGA-AX-A0J1 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-B5-A0JR    TCGA-B5-A0JZ    TCGA-B5-A0K0    TCGA-B5-A0K1    TCGA-B5-A0K4 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-BG-A0LW    TCGA-BG-A0MI    TCGA-BK-A0C9    TCGA-BK-A0CC 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DYM MUTATED        1      0      1      0      0
  DYM WILD-TYPE     11     10      6      7     15
D93V2, multiclass
[1] "Remove cluster labels:" "DYM MUTATED"           
clus
  DYM MUTATED DYM WILD-TYPE 
            2            49 
   TCGA-A5-A0G3    TCGA-A5-A0G5    TCGA-A5-A0GA    TCGA-A5-A0GB    TCGA-A5-A0GE 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-A5-A0GH    TCGA-A5-A0GM    TCGA-A5-A0GU    TCGA-AP-A051    TCGA-AP-A052 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A053    TCGA-AP-A054    TCGA-AP-A05A    TCGA-AP-A05D    TCGA-AP-A05H 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A05J    TCGA-AP-A05N    TCGA-AP-A05P    TCGA-AP-A0L8    TCGA-AP-A0L9 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A0LD    TCGA-AP-A0LG    TCGA-AP-A0LH    TCGA-AP-A0LJ    TCGA-AP-A0LN 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AP-A0LT    TCGA-AP-A0LV    TCGA-AX-A05S    TCGA-AX-A05T    TCGA-AX-A05U 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AX-A05W    TCGA-AX-A05Y    TCGA-AX-A05Z    TCGA-AX-A060    TCGA-AX-A062 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-AX-A063    TCGA-AX-A064    TCGA-AX-A06B    TCGA-AX-A0IW    TCGA-AX-A0J1 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-B5-A0JR    TCGA-B5-A0JZ    TCGA-B5-A0K0    TCGA-B5-A0K1    TCGA-B5-A0K4 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
   TCGA-BG-A0LW    TCGA-BG-A0MI    TCGA-BK-A0C9    TCGA-BK-A0CC 
"DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" "DYM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DYM MUTATED        0     10      0      0      0
  DYM WILD-TYPE     56    142     11      5     18
D93V3, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           0            56
  CLUS_2          10           142
  CLUS_3           0            11
  CLUS_4           0             5
  CLUS_5           0            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
  DYM MUTATED        2      0      4
  DYM WILD-TYPE     41     39     49
D93V4, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           2            41
  CLUS_2           0            39
  CLUS_3           4            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 CLUS_4 CLUS_5 CLUS_6
  DYM MUTATED        2      3      2      0      0      2
  DYM WILD-TYPE     37     33     35     10     40     22
D93V5, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           2            37
  CLUS_2           3            33
  CLUS_3           2            35
  CLUS_4           0            10
  CLUS_5           0            40
  CLUS_6           2            22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DYM MUTATED        4      2      1      2
  DYM WILD-TYPE     61     62     39     15
D93V6, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           4            61
  CLUS_2           2            62
  CLUS_3           1            39
  CLUS_4           2            15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DYM MUTATED        4      4      2
  DYM WILD-TYPE     75     81     81
D93V7, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           4            75
  CLUS_2           4            81
  CLUS_3           2            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
  DYM MUTATED        0      0      2      4      3      1      0
  DYM WILD-TYPE     44     41     15     29     32     30     46
D93V8, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           0            44
  CLUS_2           0            41
  CLUS_3           2            15
  CLUS_4           4            29
  CLUS_5           3            32
  CLUS_6           1            30
  CLUS_7           0            46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DYM MUTATED        3      3      3
  DYM WILD-TYPE     66     76     89
D93V9, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           3            66
  CLUS_2           3            76
  CLUS_3           3            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
  DYM MUTATED        5      0      1      3
  DYM WILD-TYPE     68     43     78     42
D93V10, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           5            68
  CLUS_2           0            43
  CLUS_3           1            78
  CLUS_4           3            42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DYM MUTATED        1      1      2
  DYM WILD-TYPE     28     18     62
D93V11, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           1            28
  CLUS_2           1            18
  CLUS_3           2            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
  DYM MUTATED        2      0      2
  DYM WILD-TYPE     31     48     29
D93V12, multiclass
        clus
vv       DYM MUTATED DYM WILD-TYPE
  CLUS_1           2            31
  CLUS_2           0            48
  CLUS_3           2            29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(94) Variable = PSMD3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMD3 MUTATED        1      2      0      0
  PSMD3 WILD-TYPE     11     16     11     10
D94V1, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             2              16
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMD3 MUTATED        2      0      0      1      0
  PSMD3 WILD-TYPE     10     10      7      6     15
D94V2, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             0               7
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PSMD3 MUTATED        0      9      0      0      1
  PSMD3 WILD-TYPE     56    143     11      5     17
D94V3, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  PSMD3 MUTATED        3      1      1
  PSMD3 WILD-TYPE     40     38     52
D94V4, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             1              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
  PSMD3 MUTATED        5      1      1      0      2      0
  PSMD3 WILD-TYPE     34     35     36     10     38     24
D94V5, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             5              34
  CLUS_2             1              35
  CLUS_3             1              36
  CLUS_4             0              10
  CLUS_5             2              38
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PSMD3 MUTATED        4      4      1      0
  PSMD3 WILD-TYPE     61     60     39     17
D94V6, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4              60
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMD3 MUTATED        5      4      2
  PSMD3 WILD-TYPE     74     81     81
D94V7, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             5              74
  CLUS_2             4              81
  CLUS_3             2              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
  PSMD3 MUTATED        0      2      3      3      1      2      0
  PSMD3 WILD-TYPE     44     39     14     30     34     29     46
D94V8, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             2              39
  CLUS_3             3              14
  CLUS_4             3              30
  CLUS_5             1              34
  CLUS_6             2              29
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMD3 MUTATED        4      4      3
  PSMD3 WILD-TYPE     65     75     89
D94V9, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              75
  CLUS_3             3              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
  PSMD3 MUTATED        4      2      3      2
  PSMD3 WILD-TYPE     69     41     76     43
D94V10, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             2              41
  CLUS_3             3              76
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PSMD3 MUTATED        1      2      1
  PSMD3 WILD-TYPE     28     17     63
D94V11, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             1              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
  PSMD3 MUTATED        2      1      1
  PSMD3 WILD-TYPE     31     47     30
D94V12, multiclass
        clus
vv       PSMD3 MUTATED PSMD3 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             1              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(95) Variable = PPM1D MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1D MUTATED        2      1      0      0
  PPM1D WILD-TYPE     10     17     11     10
D95V1, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1D MUTATED        1      0      1      1      0
  PPM1D WILD-TYPE     11     10      6      6     15
D95V2, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1D MUTATED        0     10      0      0      1
  PPM1D WILD-TYPE     56    142     11      5     17
D95V3, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0              56
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  PPM1D MUTATED        0      1      4
  PPM1D WILD-TYPE     43     38     49
D95V4, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0              43
  CLUS_2             1              38
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  PPM1D MUTATED        2      5      2      1      1      0
  PPM1D WILD-TYPE     37     31     35      9     39     24
D95V5, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             2              37
  CLUS_2             5              31
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1D MUTATED        5      3      3      0
  PPM1D WILD-TYPE     60     61     37     17
D95V6, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             5              60
  CLUS_2             3              61
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        3      6      2
  PPM1D WILD-TYPE     76     79     81
D95V7, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             3              76
  CLUS_2             6              79
  CLUS_3             2              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
  PPM1D MUTATED        0      1      0      3      5      1      1
  PPM1D WILD-TYPE     44     40     17     30     30     30     45
D95V8, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             0              17
  CLUS_4             3              30
  CLUS_5             5              30
  CLUS_6             1              30
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        4      3      3
  PPM1D WILD-TYPE     65     76     89
D95V9, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             4              65
  CLUS_2             3              76
  CLUS_3             3              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
  PPM1D MUTATED        7      2      1      0
  PPM1D WILD-TYPE     66     41     78     45
D95V10, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             7              66
  CLUS_2             2              41
  CLUS_3             1              78
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        2      0      2
  PPM1D WILD-TYPE     27     19     62
D95V11, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             2              27
  CLUS_2             0              19
  CLUS_3             2              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
  PPM1D MUTATED        2      1      1
  PPM1D WILD-TYPE     31     47     30
D95V12, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             1              30
[1] 3 2
[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 = ZMYM2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZMYM2 MUTATED        2      1      0      0
  ZMYM2 WILD-TYPE     10     17     11     10
D96V1, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMYM2 MUTATED        1      0      0      2      0
  ZMYM2 WILD-TYPE     11     10      7      5     15
D96V2, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             0               7
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZMYM2 MUTATED        1     13      0      0      2
  ZMYM2 WILD-TYPE     55    139     11      5     16
D96V3, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            13             139
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  ZMYM2 MUTATED        3      2      4
  ZMYM2 WILD-TYPE     40     37     49
D96V4, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              37
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  ZMYM2 MUTATED        3      5      2      1      1      1
  ZMYM2 WILD-TYPE     36     31     35      9     39     23
D96V5, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             5              31
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZMYM2 MUTATED        6      3      3      1
  ZMYM2 WILD-TYPE     59     61     37     16
D96V6, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             6              59
  CLUS_2             3              61
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMYM2 MUTATED        8      6      3
  ZMYM2 WILD-TYPE     71     79     80
D96V7, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             8              71
  CLUS_2             6              79
  CLUS_3             3              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
  ZMYM2 MUTATED        1      1      2      5      6      1      1
  ZMYM2 WILD-TYPE     43     40     15     28     29     30     45
D96V8, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             1              40
  CLUS_3             2              15
  CLUS_4             5              28
  CLUS_5             6              29
  CLUS_6             1              30
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMYM2 MUTATED        4      7      5
  ZMYM2 WILD-TYPE     65     72     87
D96V9, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             7              72
  CLUS_3             5              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
  ZMYM2 MUTATED        8      1      4      3
  ZMYM2 WILD-TYPE     65     42     75     42
D96V10, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             8              65
  CLUS_2             1              42
  CLUS_3             4              75
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZMYM2 MUTATED        2      2      1
  ZMYM2 WILD-TYPE     27     17     63
D96V11, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             2              17
  CLUS_3             1              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
  ZMYM2 MUTATED        3      0      2
  ZMYM2 WILD-TYPE     30     48     29
D96V12, multiclass
        clus
vv       ZMYM2 MUTATED ZMYM2 WILD-TYPE
  CLUS_1             3              30
  CLUS_2             0              48
  CLUS_3             2              29
[1] 3 2
[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 = INPP4B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INPP4B MUTATED        1      3      0      0
  INPP4B WILD-TYPE     11     15     11     10
D97V1, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              1               11
  CLUS_2              3               15
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INPP4B MUTATED        3      0      1      0      0
  INPP4B WILD-TYPE      9     10      6      7     15
D97V2, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              3                9
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  INPP4B MUTATED        0     10      0      0      1
  INPP4B WILD-TYPE     56    142     11      5     17
D97V3, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              0               56
  CLUS_2             10              142
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  INPP4B MUTATED        0      0      2
  INPP4B WILD-TYPE     43     39     51
D97V4, multiclass
[1] "Remove cluster labels:" "INPP4B MUTATED"        
clus
  INPP4B MUTATED INPP4B WILD-TYPE 
               2              133 
      TCGA-A5-A0GQ       TCGA-A5-A0VO       TCGA-AJ-A23M       TCGA-AP-A059 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A06H 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A0IS       TCGA-AX-A1C7       TCGA-AX-A1C8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JT 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11E       TCGA-B5-A11F       TCGA-B5-A11G 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11H       TCGA-B5-A11I       TCGA-B5-A11J       TCGA-B5-A11M 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q       TCGA-B5-A11R 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11V       TCGA-B5-A11W 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11X       TCGA-B5-A11Y       TCGA-B5-A11Z       TCGA-B5-A121 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VT       TCGA-BG-A0VV 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0VZ       TCGA-BG-A0W1 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A0W2       TCGA-BG-A0YU       TCGA-BG-A0YV       TCGA-BG-A186 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0U5       TCGA-BS-A0U9 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0UL       TCGA-BS-A0V6       TCGA-BS-A0V7 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BS-A0V8       TCGA-BS-A0WQ       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A0ZP       TCGA-D1-A0ZQ       TCGA-D1-A0ZR       TCGA-D1-A0ZS 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A0ZU       TCGA-D1-A0ZV       TCGA-D1-A0ZZ       TCGA-D1-A101 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A103       TCGA-D1-A15V       TCGA-D1-A15W 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A15X       TCGA-D1-A15Z       TCGA-D1-A160       TCGA-D1-A161 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T       TCGA-D1-A17U 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH       TCGA-DI-A1NN 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8       TCGA-EY-A1GS 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW       TCGA-FI-A2EX 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-FI-A2F8 
"INPP4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  INPP4B MUTATED        1      4      2      2      0      0
  INPP4B WILD-TYPE     38     32     35      8     40     24
D97V5, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              1               38
  CLUS_2              4               32
  CLUS_3              2               35
  CLUS_4              2                8
  CLUS_5              0               40
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  INPP4B MUTATED        4      1      4      0
  INPP4B WILD-TYPE     61     63     36     17
D97V6, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              4               61
  CLUS_2              1               63
  CLUS_3              4               36
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  INPP4B MUTATED        4      4      4
  INPP4B WILD-TYPE     75     81     79
D97V7, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              4               75
  CLUS_2              4               81
  CLUS_3              4               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
  INPP4B MUTATED        0      0      0      3      6      0      3
  INPP4B WILD-TYPE     44     41     17     30     29     31     43
D97V8, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              3               30
  CLUS_5              6               29
  CLUS_6              0               31
  CLUS_7              3               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  INPP4B MUTATED        2      5      4
  INPP4B WILD-TYPE     67     74     88
D97V9, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              2               67
  CLUS_2              5               74
  CLUS_3              4               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
  INPP4B MUTATED        3      1      5      2
  INPP4B WILD-TYPE     70     42     74     43
D97V10, multiclass
        clus
vv       INPP4B MUTATED INPP4B WILD-TYPE
  CLUS_1              3               70
  CLUS_2              1               42
  CLUS_3              5               74
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  INPP4B MUTATED        0      0      1
  INPP4B WILD-TYPE     29     19     63
D97V11, multiclass
[1] "Remove cluster labels:" "INPP4B MUTATED"        
clus
  INPP4B MUTATED INPP4B WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16Q       TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16Y       TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17A       TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17F       TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17M       TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  INPP4B MUTATED        0      0      1
  INPP4B WILD-TYPE     33     48     30
D97V12, multiclass
[1] "Remove cluster labels:" "INPP4B MUTATED"        
clus
  INPP4B MUTATED INPP4B WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16Q       TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A16Y       TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17A       TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17F       TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17M       TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"INPP4B WILD-TYPE" "INPP4B WILD-TYPE" "INPP4B WILD-TYPE" 

Clustering(98) Variable = USP28 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP28 MUTATED        1      1      0      0
  USP28 WILD-TYPE     11     17     11     10
D98V1, multiclass
[1] "Remove cluster labels:" "USP28 MUTATED"         
clus
  USP28 MUTATED USP28 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-BK-A0CC 
"USP28 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP28 MUTATED        1      0      0      1      0
  USP28 WILD-TYPE     11     10      7      6     15
D98V2, multiclass
[1] "Remove cluster labels:" "USP28 MUTATED"         
clus
  USP28 MUTATED USP28 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" "USP28 WILD-TYPE" 
     TCGA-BK-A0CC 
"USP28 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  USP28 MUTATED        0      9      0      0      1
  USP28 WILD-TYPE     56    143     11      5     17
D98V3, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             9             143
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  USP28 MUTATED        1      0      4
  USP28 WILD-TYPE     42     39     49
D98V4, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             0              39
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  USP28 MUTATED        2      1      2      1      2      1
  USP28 WILD-TYPE     37     35     35      9     38     23
D98V5, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              35
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP28 MUTATED        2      3      3      1
  USP28 WILD-TYPE     63     61     37     16
D98V6, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3              61
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP28 MUTATED        2      6      2
  USP28 WILD-TYPE     77     79     81
D98V7, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             2              77
  CLUS_2             6              79
  CLUS_3             2              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
  USP28 MUTATED        0      0      1      4      3      2      0
  USP28 WILD-TYPE     44     41     16     29     32     29     46
D98V8, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             4              29
  CLUS_5             3              32
  CLUS_6             2              29
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP28 MUTATED        3      3      4
  USP28 WILD-TYPE     66     76     88
D98V9, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              76
  CLUS_3             4              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
  USP28 MUTATED        6      0      3      1
  USP28 WILD-TYPE     67     43     76     44
D98V10, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP28 MUTATED        0      1      2
  USP28 WILD-TYPE     29     18     62
D98V11, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             2              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
  USP28 MUTATED        2      0      1
  USP28 WILD-TYPE     31     48     30
D98V12, multiclass
        clus
vv       USP28 MUTATED USP28 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             0              48
  CLUS_3             1              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(99) Variable = EMR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMR1 MUTATED        2      1      1      0
  EMR1 WILD-TYPE     10     17     10     10
D99V1, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMR1 MUTATED        1      0      2      1      0
  EMR1 WILD-TYPE     11     10      5      6     15
D99V2, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMR1 MUTATED        0     13      0      0      0
  EMR1 WILD-TYPE     56    139     11      5     18
D99V3, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           13            139
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            0             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
  EMR1 MUTATED        2      0      4
  EMR1 WILD-TYPE     41     39     49
D99V4, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             39
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  EMR1 MUTATED        4      3      3      1      0      1
  EMR1 WILD-TYPE     35     33     34      9     40     23
D99V5, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            3             33
  CLUS_3            3             34
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMR1 MUTATED        3      5      3      1
  EMR1 WILD-TYPE     62     59     37     16
D99V6, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            5             59
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR1 MUTATED        4      6      3
  EMR1 WILD-TYPE     75     79     80
D99V7, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            6             79
  CLUS_3            3             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
  EMR1 MUTATED        0      0      1      6      4      1      1
  EMR1 WILD-TYPE     44     41     16     27     31     30     45
D99V8, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            6             27
  CLUS_5            4             31
  CLUS_6            1             30
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR1 MUTATED        2      5      5
  EMR1 WILD-TYPE     67     74     87
D99V9, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            5             74
  CLUS_3            5             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
  EMR1 MUTATED        8      1      2      1
  EMR1 WILD-TYPE     65     42     77     44
D99V10, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            8             65
  CLUS_2            1             42
  CLUS_3            2             77
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMR1 MUTATED        0      2      2
  EMR1 WILD-TYPE     29     17     62
D99V11, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            2             17
  CLUS_3            2             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
  EMR1 MUTATED        1      0      3
  EMR1 WILD-TYPE     32     48     28
D99V12, multiclass
        clus
vv       EMR1 MUTATED EMR1 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            0             48
  CLUS_3            3             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"

Clustering(100) Variable = ZNF385B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF385B MUTATED        0      1      0      0
  ZNF385B WILD-TYPE     12     17     11     10
D100V1, multiclass
[1] "Remove cluster labels:" "ZNF385B MUTATED"       
clus
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF385B MUTATED        1      0      0      0      0
  ZNF385B WILD-TYPE     11     10      7      7     15
D100V2, multiclass
[1] "Remove cluster labels:" "ZNF385B MUTATED"       
clus
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF385B MUTATED        0      6      0      0      1
  ZNF385B WILD-TYPE     56    146     11      5     17
D100V3, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               0                56
  CLUS_2               6               146
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               1                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
  ZNF385B MUTATED        1      1      3
  ZNF385B WILD-TYPE     42     38     50
D100V4, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                38
  CLUS_3               3                50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      3      0      1      0      1
  ZNF385B WILD-TYPE     37     33     37      9     40     23
D100V5, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               2                37
  CLUS_2               3                33
  CLUS_3               0                37
  CLUS_4               1                 9
  CLUS_5               0                40
  CLUS_6               1                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      2      1      1
  ZNF385B WILD-TYPE     62     62     39     16
D100V6, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               3                62
  CLUS_2               2                62
  CLUS_3               1                39
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      2      1
  ZNF385B WILD-TYPE     75     83     82
D100V7, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               4                75
  CLUS_2               2                83
  CLUS_3               1                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
  ZNF385B MUTATED        0      0      0      2      4      0      1
  ZNF385B WILD-TYPE     44     41     17     31     31     31     45
D100V8, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               0                17
  CLUS_4               2                31
  CLUS_5               4                31
  CLUS_6               0                31
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        1      3      2
  ZNF385B WILD-TYPE     68     76     90
D100V9, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                76
  CLUS_3               2                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
  ZNF385B MUTATED        4      0      1      1
  ZNF385B WILD-TYPE     69     43     78     44
D100V10, multiclass
        clus
vv       ZNF385B MUTATED ZNF385B WILD-TYPE
  CLUS_1               4                69
  CLUS_2               0                43
  CLUS_3               1                78
  CLUS_4               1                44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1      1
  ZNF385B WILD-TYPE     29     18     63
D100V11, multiclass
[1] "Remove cluster labels:" "ZNF385B MUTATED"       
clus
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                2               110 
       TCGA-A5-A0GB        TCGA-A5-A0GN        TCGA-A5-A0GQ        TCGA-AJ-A23M 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A059        TCGA-AP-A0LF        TCGA-AP-A1DQ        TCGA-AX-A064 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A06H        TCGA-AX-A06L        TCGA-AX-A1C8        TCGA-AX-A1CP 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A2H5        TCGA-AX-A2HF        TCGA-B5-A0JR        TCGA-B5-A0JT 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A0K8        TCGA-B5-A11G        TCGA-B5-A11H        TCGA-B5-A11J 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A11M        TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A11R        TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11W 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A11Z        TCGA-B5-A121        TCGA-B5-A1MU        TCGA-B5-A1MY 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BG-A0VV        TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0YV 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BG-A186        TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BG-A18C        TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BK-A139        TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0UA 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BS-A0V6        TCGA-BS-A0V7        TCGA-BS-A0V8        TCGA-D1-A0ZN 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A0ZO        TCGA-D1-A0ZQ        TCGA-D1-A0ZS        TCGA-D1-A102 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A15V        TCGA-D1-A15W        TCGA-D1-A15X        TCGA-D1-A160 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A161        TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A168        TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A16E        TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A16J        TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A16R        TCGA-D1-A16S        TCGA-D1-A16Y        TCGA-D1-A174 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF385B MUTATED        0      1      1
  ZNF385B WILD-TYPE     33     47     30
D100V12, multiclass
[1] "Remove cluster labels:" "ZNF385B MUTATED"       
clus
  ZNF385B MUTATED ZNF385B WILD-TYPE 
                2               110 
       TCGA-A5-A0GB        TCGA-A5-A0GN        TCGA-A5-A0GQ        TCGA-AJ-A23M 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AP-A059        TCGA-AP-A0LF        TCGA-AP-A1DQ        TCGA-AX-A064 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A06H        TCGA-AX-A06L        TCGA-AX-A1C8        TCGA-AX-A1CP 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-AX-A2H5        TCGA-AX-A2HF        TCGA-B5-A0JR        TCGA-B5-A0JT 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A0K8        TCGA-B5-A11G        TCGA-B5-A11H        TCGA-B5-A11J 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A11M        TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A11R        TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11W 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-B5-A11Z        TCGA-B5-A121        TCGA-B5-A1MU        TCGA-B5-A1MY 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BG-A0VV        TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0YV 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BG-A186        TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BG-A18C        TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BK-A139        TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0UA 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-BS-A0V6        TCGA-BS-A0V7        TCGA-BS-A0V8        TCGA-D1-A0ZN 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A0ZO        TCGA-D1-A0ZQ        TCGA-D1-A0ZS        TCGA-D1-A102 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A15V        TCGA-D1-A15W        TCGA-D1-A15X        TCGA-D1-A160 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A161        TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A168        TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A16E        TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A16J        TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A16R        TCGA-D1-A16S        TCGA-D1-A16Y        TCGA-D1-A174 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"ZNF385B WILD-TYPE" "ZNF385B WILD-TYPE" 

Clustering(101) Variable = RAE1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAE1 MUTATED        1      3      0      0
  RAE1 WILD-TYPE     11     15     11     10
D101V1, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            3             15
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      0      1      0      0
  RAE1 WILD-TYPE      9     10      6      7     15
D101V2, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            3              9
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            0              7
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      8      0      0      2
  RAE1 WILD-TYPE     55    144     11      5     16
D101V3, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             55
  CLUS_2            8            144
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  RAE1 MUTATED        1      0      4
  RAE1 WILD-TYPE     42     39     49
D101V4, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            0             39
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  RAE1 MUTATED        1      3      3      1      0      1
  RAE1 WILD-TYPE     38     33     34      9     40     23
D101V5, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            3             34
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      1      4      1
  RAE1 WILD-TYPE     62     63     36     16
D101V6, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            1             63
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      4      2
  RAE1 WILD-TYPE     74     81     81
D101V7, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            5             74
  CLUS_2            4             81
  CLUS_3            2             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
  RAE1 MUTATED        1      0      1      4      4      1      0
  RAE1 WILD-TYPE     43     41     16     29     31     30     46
D101V8, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            1             43
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            4             29
  CLUS_5            4             31
  CLUS_6            1             30
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        4      4      2
  RAE1 WILD-TYPE     65     75     90
D101V9, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            4             75
  CLUS_3            2             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
  RAE1 MUTATED        5      0      3      2
  RAE1 WILD-TYPE     68     43     76     43
D101V10, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            5             68
  CLUS_2            0             43
  CLUS_3            3             76
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      0      2
  RAE1 WILD-TYPE     26     19     62
D101V11, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            3             26
  CLUS_2            0             19
  CLUS_3            2             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
  RAE1 MUTATED        2      1      2
  RAE1 WILD-TYPE     31     47     29
D101V12, multiclass
        clus
vv       RAE1 MUTATED RAE1 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            1             47
  CLUS_3            2             29
[1] 3 2
[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 = TRIM59 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM59 MUTATED        0      1      1      0
  TRIM59 WILD-TYPE     12     17     10     10
D102V1, multiclass
[1] "Remove cluster labels:" "TRIM59 MUTATED"        
clus
  TRIM59 MUTATED TRIM59 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GU 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H       TCGA-AP-A05J 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8       TCGA-AP-A0L9 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH       TCGA-AP-A0LJ 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV       TCGA-AX-A05S 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-BK-A0CC 
"TRIM59 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM59 MUTATED        1      0      1      0      0
  TRIM59 WILD-TYPE     11     10      6      7     15
D102V2, multiclass
[1] "Remove cluster labels:" "TRIM59 MUTATED"        
clus
  TRIM59 MUTATED TRIM59 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GU 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H       TCGA-AP-A05J 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8       TCGA-AP-A0L9 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH       TCGA-AP-A0LJ 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV       TCGA-AX-A05S 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" "TRIM59 WILD-TYPE" 
      TCGA-BK-A0CC 
"TRIM59 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TRIM59 MUTATED        0      8      0      1      0
  TRIM59 WILD-TYPE     56    144     11      4     18
D102V3, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              1                4
  CLUS_5              0               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
  TRIM59 MUTATED        1      2      2
  TRIM59 WILD-TYPE     42     37     51
D102V4, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               37
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM59 MUTATED        1      1      3      2      1      0
  TRIM59 WILD-TYPE     38     35     34      8     39     24
D102V5, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               35
  CLUS_3              3               34
  CLUS_4              2                8
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM59 MUTATED        1      4      3      0
  TRIM59 WILD-TYPE     64     60     37     17
D102V6, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4               60
  CLUS_3              3               37
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM59 MUTATED        3      2      4
  TRIM59 WILD-TYPE     76     83     79
D102V7, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              2               83
  CLUS_3              4               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
  TRIM59 MUTATED        0      0      0      3      3      2      1
  TRIM59 WILD-TYPE     44     41     17     30     32     29     45
D102V8, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              3               30
  CLUS_5              3               32
  CLUS_6              2               29
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM59 MUTATED        1      3      4
  TRIM59 WILD-TYPE     68     76     88
D102V9, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               76
  CLUS_3              4               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
  TRIM59 MUTATED        5      0      3      0
  TRIM59 WILD-TYPE     68     43     76     45
D102V10, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              0               43
  CLUS_3              3               76
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIM59 MUTATED        0      2      2
  TRIM59 WILD-TYPE     29     17     62
D102V11, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              2               17
  CLUS_3              2               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
  TRIM59 MUTATED        0      0      4
  TRIM59 WILD-TYPE     33     48     27
D102V12, multiclass
        clus
vv       TRIM59 MUTATED TRIM59 WILD-TYPE
  CLUS_1              0               33
  CLUS_2              0               48
  CLUS_3              4               27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(103) Variable = ZNF721 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF721 MUTATED        1      1      1      0
  ZNF721 WILD-TYPE     11     17     10     10
D103V1, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      0      0
  ZNF721 WILD-TYPE     11     10      5      7     15
D103V2, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     11      0      0      2
  ZNF721 WILD-TYPE     56    141     11      5     16
D103V3, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             11              141
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF721 MUTATED        2      1      4
  ZNF721 WILD-TYPE     41     38     49
D103V4, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               38
  CLUS_3              4               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 CLUS_4 CLUS_5 CLUS_6
  ZNF721 MUTATED        4      4      0      1      0      2
  ZNF721 WILD-TYPE     35     32     37      9     40     22
D103V5, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              4               32
  CLUS_3              0               37
  CLUS_4              1                9
  CLUS_5              0               40
  CLUS_6              2               22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      5      1      1
  ZNF721 WILD-TYPE     61     59     39     16
D103V6, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              5               59
  CLUS_3              1               39
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      4      3
  ZNF721 WILD-TYPE     73     81     80
D103V7, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              6               73
  CLUS_2              4               81
  CLUS_3              3               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
  ZNF721 MUTATED        0      0      1      3      6      2      1
  ZNF721 WILD-TYPE     44     41     16     30     29     29     45
D103V8, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              6               29
  CLUS_6              2               29
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      6      3
  ZNF721 WILD-TYPE     66     73     89
D103V9, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              6               73
  CLUS_3              3               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
  ZNF721 MUTATED        7      1      3      1
  ZNF721 WILD-TYPE     66     42     76     44
D103V10, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      2
  ZNF721 WILD-TYPE     29     17     62
D103V11, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              2               17
  CLUS_3              2               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
  ZNF721 MUTATED        1      2      1
  ZNF721 WILD-TYPE     32     46     30
D103V12, multiclass
        clus
vv       ZNF721 MUTATED ZNF721 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              2               46
  CLUS_3              1               30
[1] 3 2
[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 = MCTP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCTP1 MUTATED        2      1      0      0
  MCTP1 WILD-TYPE     10     17     11     10
D104V1, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCTP1 MUTATED        0      1      1      1      0
  MCTP1 WILD-TYPE     12      9      6      6     15
D104V2, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             0              12
  CLUS_2             1               9
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCTP1 MUTATED        1     11      0      0      1
  MCTP1 WILD-TYPE     55    141     11      5     17
D104V3, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            11             141
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  MCTP1 MUTATED        3      1      2
  MCTP1 WILD-TYPE     40     38     51
D104V4, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCTP1 MUTATED        5      2      2      1      1      0
  MCTP1 WILD-TYPE     34     34     35      9     39     24
D104V5, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             5              34
  CLUS_2             2              34
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCTP1 MUTATED        4      4      3      0
  MCTP1 WILD-TYPE     61     60     37     17
D104V6, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4              60
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCTP1 MUTATED        6      4      3
  MCTP1 WILD-TYPE     73     81     80
D104V7, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             4              81
  CLUS_3             3              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
  MCTP1 MUTATED        1      0      1      5      4      0      2
  MCTP1 WILD-TYPE     43     41     16     28     31     31     44
D104V8, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             5              28
  CLUS_5             4              31
  CLUS_6             0              31
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCTP1 MUTATED        2      7      3
  MCTP1 WILD-TYPE     67     72     89
D104V9, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             7              72
  CLUS_3             3              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
  MCTP1 MUTATED        5      2      4      1
  MCTP1 WILD-TYPE     68     41     75     44
D104V10, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             5              68
  CLUS_2             2              41
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MCTP1 MUTATED        0      3      1
  MCTP1 WILD-TYPE     29     16     63
D104V11, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             3              16
  CLUS_3             1              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
  MCTP1 MUTATED        1      0      3
  MCTP1 WILD-TYPE     32     48     28
D104V12, multiclass
        clus
vv       MCTP1 MUTATED MCTP1 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             0              48
  CLUS_3             3              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"

Clustering(105) Variable = ZNF774 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF774 MUTATED        2      0      0      0
  ZNF774 WILD-TYPE     10     18     11     10
D105V1, multiclass
[1] "Remove cluster labels:" "ZNF774 MUTATED"        
clus
  ZNF774 MUTATED ZNF774 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF774 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF774 MUTATED        0      0      1      1      0
  ZNF774 WILD-TYPE     12     10      6      6     15
D105V2, multiclass
[1] "Remove cluster labels:" "ZNF774 MUTATED"        
clus
  ZNF774 MUTATED ZNF774 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" "ZNF774 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF774 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF774 MUTATED        1      9      0      0      0
  ZNF774 WILD-TYPE     55    143     11      5     18
D105V3, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              1               55
  CLUS_2              9              143
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  ZNF774 MUTATED        3      1      2
  ZNF774 WILD-TYPE     40     38     51
D105V4, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               38
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF774 MUTATED        4      1      1      1      2      0
  ZNF774 WILD-TYPE     35     35     36      9     38     24
D105V5, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              1               35
  CLUS_3              1               36
  CLUS_4              1                9
  CLUS_5              2               38
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF774 MUTATED        3      4      2      0
  ZNF774 WILD-TYPE     62     60     38     17
D105V6, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              4               60
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF774 MUTATED        3      5      2
  ZNF774 WILD-TYPE     76     80     81
D105V7, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              5               80
  CLUS_3              2               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
  ZNF774 MUTATED        1      0      1      4      2      0      2
  ZNF774 WILD-TYPE     43     41     16     29     33     31     44
D105V8, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              4               29
  CLUS_5              2               33
  CLUS_6              0               31
  CLUS_7              2               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF774 MUTATED        3      5      2
  ZNF774 WILD-TYPE     66     74     90
D105V9, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               74
  CLUS_3              2               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
  ZNF774 MUTATED        6      1      2      1
  ZNF774 WILD-TYPE     67     42     77     44
D105V10, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              6               67
  CLUS_2              1               42
  CLUS_3              2               77
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF774 MUTATED        1      2      3
  ZNF774 WILD-TYPE     28     17     61
D105V11, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              2               17
  CLUS_3              3               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
  ZNF774 MUTATED        4      1      1
  ZNF774 WILD-TYPE     29     47     30
D105V12, multiclass
        clus
vv       ZNF774 MUTATED ZNF774 WILD-TYPE
  CLUS_1              4               29
  CLUS_2              1               47
  CLUS_3              1               30
[1] 3 2
[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 = FAM9A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM9A MUTATED        0      0      1      0
  FAM9A WILD-TYPE     12     18     10     10
D106V1, multiclass
[1] "Remove cluster labels:" "FAM9A MUTATED"         
clus
  FAM9A MUTATED FAM9A WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A062      TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A0IW      TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-B5-A0K0      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM9A MUTATED        0      0      0      0      1
  FAM9A WILD-TYPE     12     10      7      7     14
D106V2, multiclass
[1] "Remove cluster labels:" "FAM9A MUTATED"         
clus
  FAM9A MUTATED FAM9A WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A062      TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A0IW      TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-B5-A0K0      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM9A MUTATED        3     10      0      0      1
  FAM9A WILD-TYPE     53    142     11      5     17
D106V3, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             3              53
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  FAM9A MUTATED        5      0      5
  FAM9A WILD-TYPE     38     39     48
D106V4, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             5              38
  CLUS_2             0              39
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  FAM9A MUTATED        3      5      2      0      0      1
  FAM9A WILD-TYPE     36     31     35     10     40     23
D106V5, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             3              36
  CLUS_2             5              31
  CLUS_3             2              35
  CLUS_4             0              10
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      3      1      1
  FAM9A WILD-TYPE     59     61     39     16
D106V6, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             6              59
  CLUS_2             3              61
  CLUS_3             1              39
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      6      1
  FAM9A WILD-TYPE     72     79     82
D106V7, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             7              72
  CLUS_2             6              79
  CLUS_3             1              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
  FAM9A MUTATED        2      1      3      3      4      0      1
  FAM9A WILD-TYPE     42     40     14     30     31     31     45
D106V8, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             2              42
  CLUS_2             1              40
  CLUS_3             3              14
  CLUS_4             3              30
  CLUS_5             4              31
  CLUS_6             0              31
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        5      5      4
  FAM9A WILD-TYPE     64     74     88
D106V9, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             5              64
  CLUS_2             5              74
  CLUS_3             4              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
  FAM9A MUTATED        8      1      1      4
  FAM9A WILD-TYPE     65     42     78     41
D106V10, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             8              65
  CLUS_2             1              42
  CLUS_3             1              78
  CLUS_4             4              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
  FAM9A MUTATED        4      1      2
  FAM9A WILD-TYPE     25     18     62
D106V11, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             4              25
  CLUS_2             1              18
  CLUS_3             2              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
  FAM9A MUTATED        4      0      3
  FAM9A WILD-TYPE     29     48     28
D106V12, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             4              29
  CLUS_2             0              48
  CLUS_3             3              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"

Clustering(107) Variable = CFP MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CFP MUTATED        1      0      0      0
  CFP WILD-TYPE     11     18     11     10
D107V1, multiclass
[1] "Remove cluster labels:" "CFP MUTATED"           
clus
  CFP MUTATED CFP WILD-TYPE 
            1            50 
   TCGA-A5-A0G3    TCGA-A5-A0G5    TCGA-A5-A0GA    TCGA-A5-A0GB    TCGA-A5-A0GE 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-A5-A0GH    TCGA-A5-A0GM    TCGA-A5-A0GP    TCGA-A5-A0GU    TCGA-AP-A051 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A052    TCGA-AP-A053    TCGA-AP-A054    TCGA-AP-A056    TCGA-AP-A05A 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A05D    TCGA-AP-A05H    TCGA-AP-A05J    TCGA-AP-A05N    TCGA-AP-A05P 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A0L8    TCGA-AP-A0L9    TCGA-AP-A0LD    TCGA-AP-A0LG    TCGA-AP-A0LH 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A0LJ    TCGA-AP-A0LN    TCGA-AP-A0LT    TCGA-AP-A0LV    TCGA-AX-A05T 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AX-A05U    TCGA-AX-A05W    TCGA-AX-A05Y    TCGA-AX-A05Z    TCGA-AX-A060 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AX-A062    TCGA-AX-A063    TCGA-AX-A064    TCGA-AX-A06B    TCGA-AX-A0IW 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AX-A0J1    TCGA-B5-A0JR    TCGA-B5-A0JZ    TCGA-B5-A0K0    TCGA-B5-A0K1 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-B5-A0K4    TCGA-BG-A0LW    TCGA-BG-A0MI    TCGA-BK-A0C9    TCGA-BK-A0CC 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CFP MUTATED        0      0      1      0      0
  CFP WILD-TYPE     12     10      6      7     15
D107V2, multiclass
[1] "Remove cluster labels:" "CFP MUTATED"           
clus
  CFP MUTATED CFP WILD-TYPE 
            1            50 
   TCGA-A5-A0G3    TCGA-A5-A0G5    TCGA-A5-A0GA    TCGA-A5-A0GB    TCGA-A5-A0GE 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-A5-A0GH    TCGA-A5-A0GM    TCGA-A5-A0GP    TCGA-A5-A0GU    TCGA-AP-A051 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A052    TCGA-AP-A053    TCGA-AP-A054    TCGA-AP-A056    TCGA-AP-A05A 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A05D    TCGA-AP-A05H    TCGA-AP-A05J    TCGA-AP-A05N    TCGA-AP-A05P 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A0L8    TCGA-AP-A0L9    TCGA-AP-A0LD    TCGA-AP-A0LG    TCGA-AP-A0LH 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AP-A0LJ    TCGA-AP-A0LN    TCGA-AP-A0LT    TCGA-AP-A0LV    TCGA-AX-A05T 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AX-A05U    TCGA-AX-A05W    TCGA-AX-A05Y    TCGA-AX-A05Z    TCGA-AX-A060 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AX-A062    TCGA-AX-A063    TCGA-AX-A064    TCGA-AX-A06B    TCGA-AX-A0IW 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-AX-A0J1    TCGA-B5-A0JR    TCGA-B5-A0JZ    TCGA-B5-A0K0    TCGA-B5-A0K1 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
   TCGA-B5-A0K4    TCGA-BG-A0LW    TCGA-BG-A0MI    TCGA-BK-A0C9    TCGA-BK-A0CC 
"CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" "CFP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CFP MUTATED        0      7      0      0      1
  CFP WILD-TYPE     56    145     11      5     17
D107V3, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           0            56
  CLUS_2           7           145
  CLUS_3           0            11
  CLUS_4           0             5
  CLUS_5           1            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
  CFP MUTATED        2      1      2
  CFP WILD-TYPE     41     38     51
D107V4, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           2            41
  CLUS_2           1            38
  CLUS_3           2            51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CFP MUTATED        2      0      0      1      2      0
  CFP WILD-TYPE     37     36     37      9     38     24
D107V5, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           2            37
  CLUS_2           0            36
  CLUS_3           0            37
  CLUS_4           1             9
  CLUS_5           2            38
  CLUS_6           0            24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CFP MUTATED        2      3      0      0
  CFP WILD-TYPE     63     61     40     17
D107V6, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           2            63
  CLUS_2           3            61
  CLUS_3           0            40
  CLUS_4           0            17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CFP MUTATED        4      3      1
  CFP WILD-TYPE     75     82     82
D107V7, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           4            75
  CLUS_2           3            82
  CLUS_3           1            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
  CFP MUTATED        1      2      1      1      1      1      1
  CFP WILD-TYPE     43     39     16     32     34     30     45
D107V8, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           1            43
  CLUS_2           2            39
  CLUS_3           1            16
  CLUS_4           1            32
  CLUS_5           1            34
  CLUS_6           1            30
  CLUS_7           1            45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CFP MUTATED        2      4      2
  CFP WILD-TYPE     67     75     90
D107V9, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           2            67
  CLUS_2           4            75
  CLUS_3           2            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
  CFP MUTATED        4      1      2      1
  CFP WILD-TYPE     69     42     77     44
D107V10, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           4            69
  CLUS_2           1            42
  CLUS_3           2            77
  CLUS_4           1            44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CFP MUTATED        1      2      1
  CFP WILD-TYPE     28     17     63
D107V11, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           1            28
  CLUS_2           2            17
  CLUS_3           1            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
  CFP MUTATED        2      1      1
  CFP WILD-TYPE     31     47     30
D107V12, multiclass
        clus
vv       CFP MUTATED CFP WILD-TYPE
  CLUS_1           2            31
  CLUS_2           1            47
  CLUS_3           1            30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(108) Variable = PER3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PER3 MUTATED        0      2      0      0
  PER3 WILD-TYPE     12     16     11     10
D108V1, multiclass
[1] "Remove cluster labels:" "PER3 MUTATED"          
clus
  PER3 MUTATED PER3 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-BK-A0CC 
"PER3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PER3 MUTATED        2      0      0      0      0
  PER3 WILD-TYPE     10     10      7      7     15
D108V2, multiclass
[1] "Remove cluster labels:" "PER3 MUTATED"          
clus
  PER3 MUTATED PER3 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AX-A05Y     TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" "PER3 WILD-TYPE" 
    TCGA-BK-A0CC 
"PER3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PER3 MUTATED        0     10      0      0      2
  PER3 WILD-TYPE     56    142     11      5     16
D108V3, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           10            142
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  PER3 MUTATED        2      0      5
  PER3 WILD-TYPE     41     39     48
D108V4, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            0             39
  CLUS_3            5             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 CLUS_4 CLUS_5 CLUS_6
  PER3 MUTATED        3      5      2      0      0      1
  PER3 WILD-TYPE     36     31     35     10     40     23
D108V5, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            3             36
  CLUS_2            5             31
  CLUS_3            2             35
  CLUS_4            0             10
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      5      1      1
  PER3 WILD-TYPE     61     59     39     16
D108V6, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            4             61
  CLUS_2            5             59
  CLUS_3            1             39
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      4      1
  PER3 WILD-TYPE     72     81     82
D108V7, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            7             72
  CLUS_2            4             81
  CLUS_3            1             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
  PER3 MUTATED        0      0      1      4      6      0      1
  PER3 WILD-TYPE     44     41     16     29     29     31     45
D108V8, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            4             29
  CLUS_5            6             29
  CLUS_6            0             31
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      5      3
  PER3 WILD-TYPE     66     74     89
D108V9, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             74
  CLUS_3            3             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
  PER3 MUTATED        7      0      2      2
  PER3 WILD-TYPE     66     43     77     43
D108V10, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            7             66
  CLUS_2            0             43
  CLUS_3            2             77
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      1
  PER3 WILD-TYPE     28     17     63
D108V11, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            1             28
  CLUS_2            2             17
  CLUS_3            1             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
  PER3 MUTATED        2      0      2
  PER3 WILD-TYPE     31     48     29
D108V12, multiclass
        clus
vv       PER3 MUTATED PER3 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            0             48
  CLUS_3            2             29
[1] 3 2
[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 = ZRANB3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZRANB3 MUTATED        1      2      0      0
  ZRANB3 WILD-TYPE     11     16     11     10
D109V1, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZRANB3 MUTATED        2      0      0      1      0
  ZRANB3 WILD-TYPE     10     10      7      6     15
D109V2, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              0                7
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZRANB3 MUTATED        0      7      0      0      1
  ZRANB3 WILD-TYPE     56    145     11      5     17
D109V3, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              7              145
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  ZRANB3 MUTATED        1      0      1
  ZRANB3 WILD-TYPE     42     39     52
D109V4, multiclass
[1] "Remove cluster labels:" "ZRANB3 MUTATED"        
clus
  ZRANB3 MUTATED ZRANB3 WILD-TYPE 
               2              133 
      TCGA-A5-A0GQ       TCGA-A5-A0VO       TCGA-AJ-A23M       TCGA-AP-A059 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A06H 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A0IS       TCGA-AX-A0J0       TCGA-AX-A1C7 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AX-A1C8       TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11E       TCGA-B5-A11F 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11I       TCGA-B5-A11J 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11V 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11X       TCGA-B5-A11Y       TCGA-B5-A11Z 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VT 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0VZ 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A0W1       TCGA-BG-A0W2       TCGA-BG-A0YU       TCGA-BG-A0YV 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0U5 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BS-A0U9       TCGA-BS-A0UA       TCGA-BS-A0UL       TCGA-BS-A0V6 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-BS-A0WQ       TCGA-D1-A0ZN 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZP       TCGA-D1-A0ZQ       TCGA-D1-A0ZR 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A0ZS       TCGA-D1-A0ZU       TCGA-D1-A0ZV       TCGA-D1-A0ZZ 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A101       TCGA-D1-A102       TCGA-D1-A103       TCGA-D1-A15V 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A15W       TCGA-D1-A15Z       TCGA-D1-A160       TCGA-D1-A161 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A17A       TCGA-D1-A17B       TCGA-D1-A17C 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H       TCGA-D1-A17K 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N       TCGA-D1-A17Q 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T       TCGA-D1-A17U 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH       TCGA-DI-A1NN 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8       TCGA-EY-A1GS 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW       TCGA-FI-A2EX 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-FI-A2F8 
"ZRANB3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZRANB3 MUTATED        1      3      1      1      1      0
  ZRANB3 WILD-TYPE     38     33     36      9     39     24
D109V5, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              3               33
  CLUS_3              1               36
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZRANB3 MUTATED        4      1      2      0
  ZRANB3 WILD-TYPE     61     63     38     17
D109V6, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              1               63
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZRANB3 MUTATED        3      5      0
  ZRANB3 WILD-TYPE     76     80     83
D109V7, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              5               80
  CLUS_3              0               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
  ZRANB3 MUTATED        0      0      1      3      4      0      0
  ZRANB3 WILD-TYPE     44     41     16     30     31     31     46
D109V8, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              4               31
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZRANB3 MUTATED        3      4      0
  ZRANB3 WILD-TYPE     66     75     92
D109V9, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               75
  CLUS_3              0               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
  ZRANB3 MUTATED        4      0      1      2
  ZRANB3 WILD-TYPE     69     43     78     43
D109V10, multiclass
        clus
vv       ZRANB3 MUTATED ZRANB3 WILD-TYPE
  CLUS_1              4               69
  CLUS_2              0               43
  CLUS_3              1               78
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZRANB3 MUTATED        1      0      1
  ZRANB3 WILD-TYPE     28     19     63
D109V11, multiclass
[1] "Remove cluster labels:" "ZRANB3 MUTATED"        
clus
  ZRANB3 MUTATED ZRANB3 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A160 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A17A       TCGA-D1-A17B 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZRANB3 MUTATED        1      0      1
  ZRANB3 WILD-TYPE     32     48     30
D109V12, multiclass
[1] "Remove cluster labels:" "ZRANB3 MUTATED"        
clus
  ZRANB3 MUTATED ZRANB3 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A160 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A17A       TCGA-D1-A17B 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"ZRANB3 WILD-TYPE" "ZRANB3 WILD-TYPE" 

Clustering(110) Variable = OMA1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OMA1 MUTATED        1      0      0      0
  OMA1 WILD-TYPE     11     18     11     10
D110V1, multiclass
[1] "Remove cluster labels:" "OMA1 MUTATED"          
clus
  OMA1 MUTATED OMA1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OMA1 MUTATED        0      0      1      0      0
  OMA1 WILD-TYPE     12     10      6      7     15
D110V2, multiclass
[1] "Remove cluster labels:" "OMA1 MUTATED"          
clus
  OMA1 MUTATED OMA1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"OMA1 WILD-TYPE" "OMA1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OMA1 MUTATED        0      7      0      0      2
  OMA1 WILD-TYPE     56    145     11      5     16
D110V3, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            7            145
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  OMA1 MUTATED        1      1      4
  OMA1 WILD-TYPE     42     38     49
D110V4, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            1             38
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  OMA1 MUTATED        4      2      1      1      0      1
  OMA1 WILD-TYPE     35     34     36      9     40     23
D110V5, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            2             34
  CLUS_3            1             36
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OMA1 MUTATED        3      4      1      1
  OMA1 WILD-TYPE     62     60     39     16
D110V6, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            4             60
  CLUS_3            1             39
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OMA1 MUTATED        3      4      3
  OMA1 WILD-TYPE     76     81     80
D110V7, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            3             76
  CLUS_2            4             81
  CLUS_3            3             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
  OMA1 MUTATED        0      0      0      4      3      1      2
  OMA1 WILD-TYPE     44     41     17     29     32     30     44
D110V8, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            0             17
  CLUS_4            4             29
  CLUS_5            3             32
  CLUS_6            1             30
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OMA1 MUTATED        1      4      5
  OMA1 WILD-TYPE     68     75     87
D110V9, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             75
  CLUS_3            5             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
  OMA1 MUTATED        5      1      4      0
  OMA1 WILD-TYPE     68     42     75     45
D110V10, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            5             68
  CLUS_2            1             42
  CLUS_3            4             75
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OMA1 MUTATED        0      1      3
  OMA1 WILD-TYPE     29     18     61
D110V11, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            1             18
  CLUS_3            3             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
  OMA1 MUTATED        0      2      2
  OMA1 WILD-TYPE     33     46     29
D110V12, multiclass
        clus
vv       OMA1 MUTATED OMA1 WILD-TYPE
  CLUS_1            0             33
  CLUS_2            2             46
  CLUS_3            2             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(111) Variable = CLDN15 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLDN15 MUTATED        1      0      0      0
  CLDN15 WILD-TYPE     11     18     11     10
D111V1, multiclass
[1] "Remove cluster labels:" "CLDN15 MUTATED"        
clus
  CLDN15 MUTATED CLDN15 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN15 MUTATED        0      0      1      0      0
  CLDN15 WILD-TYPE     12     10      6      7     15
D111V2, multiclass
[1] "Remove cluster labels:" "CLDN15 MUTATED"        
clus
  CLDN15 MUTATED CLDN15 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"CLDN15 WILD-TYPE" "CLDN15 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLDN15 MUTATED        0      5      0      0      0
  CLDN15 WILD-TYPE     56    147     11      5     18
D111V3, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              5              147
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  CLDN15 MUTATED        0      1      3
  CLDN15 WILD-TYPE     43     38     50
D111V4, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              1               38
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CLDN15 MUTATED        1      1      2      0      0      0
  CLDN15 WILD-TYPE     38     35     35     10     40     24
D111V5, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               35
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              0               40
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLDN15 MUTATED        1      1      2      0
  CLDN15 WILD-TYPE     64     63     38     17
D111V6, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              1               63
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN15 MUTATED        0      4      1
  CLDN15 WILD-TYPE     79     81     82
D111V7, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              0               79
  CLUS_2              4               81
  CLUS_3              1               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
  CLDN15 MUTATED        0      0      0      5      0      0      0
  CLDN15 WILD-TYPE     44     41     17     28     35     31     46
D111V8, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              5               28
  CLUS_5              0               35
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN15 MUTATED        0      3      2
  CLDN15 WILD-TYPE     69     76     90
D111V9, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              3               76
  CLUS_3              2               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
  CLDN15 MUTATED        3      1      1      0
  CLDN15 WILD-TYPE     70     42     78     45
D111V10, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              3               70
  CLUS_2              1               42
  CLUS_3              1               78
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CLDN15 MUTATED        0      0      3
  CLDN15 WILD-TYPE     29     19     61
D111V11, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              0               19
  CLUS_3              3               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
  CLDN15 MUTATED        1      0      2
  CLDN15 WILD-TYPE     32     48     29
D111V12, multiclass
        clus
vv       CLDN15 MUTATED CLDN15 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              0               48
  CLUS_3              2               29
[1] 3 2
[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 = TTC39C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTC39C MUTATED        1      2      0      0
  TTC39C WILD-TYPE     11     16     11     10
D112V1, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTC39C MUTATED        2      0      0      1      0
  TTC39C WILD-TYPE     10     10      7      6     15
D112V2, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              0                7
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TTC39C MUTATED        0      6      0      0      1
  TTC39C WILD-TYPE     56    146     11      5     17
D112V3, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              0               56
  CLUS_2              6              146
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  TTC39C MUTATED        0      1      1
  TTC39C WILD-TYPE     43     38     52
D112V4, multiclass
[1] "Remove cluster labels:" "TTC39C MUTATED"        
clus
  TTC39C MUTATED TTC39C WILD-TYPE 
               2              133 
      TCGA-A5-A0GQ       TCGA-A5-A0VO       TCGA-AJ-A23M       TCGA-AP-A059 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A06H 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A0IS       TCGA-AX-A0J0       TCGA-AX-A1C7 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AX-A1C8       TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11F       TCGA-B5-A11G 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11H       TCGA-B5-A11I       TCGA-B5-A11J       TCGA-B5-A11M 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q       TCGA-B5-A11R 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11V       TCGA-B5-A11W 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11X       TCGA-B5-A11Y       TCGA-B5-A11Z       TCGA-B5-A121 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VT       TCGA-BG-A0VV 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0VZ       TCGA-BG-A0W1 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A0W2       TCGA-BG-A0YU       TCGA-BG-A0YV       TCGA-BG-A186 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0U5       TCGA-BS-A0U9 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0UL       TCGA-BS-A0V6       TCGA-BS-A0V7 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BS-A0V8       TCGA-BS-A0WQ       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A0ZP       TCGA-D1-A0ZQ       TCGA-D1-A0ZR       TCGA-D1-A0ZS 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A0ZU       TCGA-D1-A0ZV       TCGA-D1-A0ZZ       TCGA-D1-A101 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A103       TCGA-D1-A15V       TCGA-D1-A15W 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A15X       TCGA-D1-A15Z       TCGA-D1-A160       TCGA-D1-A161 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16Y       TCGA-D1-A174       TCGA-D1-A176 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B       TCGA-D1-A17C 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H       TCGA-D1-A17K 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N       TCGA-D1-A17Q 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T       TCGA-D1-A17U 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH       TCGA-DI-A1NN 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8       TCGA-EY-A1GS 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW       TCGA-FI-A2EX 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-FI-A2F8 
"TTC39C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TTC39C MUTATED        1      4      1      1      0      0
  TTC39C WILD-TYPE     38     32     36      9     40     24
D112V5, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              1               38
  CLUS_2              4               32
  CLUS_3              1               36
  CLUS_4              1                9
  CLUS_5              0               40
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTC39C MUTATED        4      1      2      0
  TTC39C WILD-TYPE     61     63     38     17
D112V6, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              4               61
  CLUS_2              1               63
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTC39C MUTATED        2      4      1
  TTC39C WILD-TYPE     77     81     82
D112V7, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              2               77
  CLUS_2              4               81
  CLUS_3              1               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
  TTC39C MUTATED        0      0      0      2      4      0      1
  TTC39C WILD-TYPE     44     41     17     31     31     31     45
D112V8, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              2               31
  CLUS_5              4               31
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTC39C MUTATED        1      4      1
  TTC39C WILD-TYPE     68     75     91
D112V9, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               75
  CLUS_3              1               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
  TTC39C MUTATED        4      0      1      1
  TTC39C WILD-TYPE     69     43     78     44
D112V10, multiclass
        clus
vv       TTC39C MUTATED TTC39C WILD-TYPE
  CLUS_1              4               69
  CLUS_2              0               43
  CLUS_3              1               78
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTC39C MUTATED        0      0      1
  TTC39C WILD-TYPE     29     19     63
D112V11, multiclass
[1] "Remove cluster labels:" "TTC39C MUTATED"        
clus
  TTC39C MUTATED TTC39C WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16Q       TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16Y 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TTC39C MUTATED        0      1      0
  TTC39C WILD-TYPE     33     47     31
D112V12, multiclass
[1] "Remove cluster labels:" "TTC39C MUTATED"        
clus
  TTC39C MUTATED TTC39C WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A16Q       TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16Y 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"TTC39C WILD-TYPE" "TTC39C WILD-TYPE" "TTC39C WILD-TYPE" 

Clustering(113) Variable = TXNRD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXNRD1 MUTATED        1      2      0      0
  TXNRD1 WILD-TYPE     11     16     11     10
D113V1, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNRD1 MUTATED        2      0      0      1      0
  TXNRD1 WILD-TYPE     10     10      7      6     15
D113V2, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              0                7
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TXNRD1 MUTATED        1      6      0      0      1
  TXNRD1 WILD-TYPE     55    146     11      5     17
D113V3, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              1               55
  CLUS_2              6              146
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  TXNRD1 MUTATED        1      0      3
  TXNRD1 WILD-TYPE     42     39     50
D113V4, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TXNRD1 MUTATED        1      4      2      0      1      0
  TXNRD1 WILD-TYPE     38     32     35     10     39     24
D113V5, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              4               32
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXNRD1 MUTATED        4      2      2      0
  TXNRD1 WILD-TYPE     61     62     38     17
D113V6, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              2               62
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNRD1 MUTATED        4      3      1
  TXNRD1 WILD-TYPE     75     82     82
D113V7, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              4               75
  CLUS_2              3               82
  CLUS_3              1               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
  TXNRD1 MUTATED        1      0      1      3      3      0      0
  TXNRD1 WILD-TYPE     43     41     16     30     32     31     46
D113V8, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              3               32
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNRD1 MUTATED        1      6      1
  TXNRD1 WILD-TYPE     68     73     91
D113V9, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              6               73
  CLUS_3              1               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
  TXNRD1 MUTATED        4      0      1      3
  TXNRD1 WILD-TYPE     69     43     78     42
D113V10, multiclass
        clus
vv       TXNRD1 MUTATED TXNRD1 WILD-TYPE
  CLUS_1              4               69
  CLUS_2              0               43
  CLUS_3              1               78
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNRD1 MUTATED        1      0      1
  TXNRD1 WILD-TYPE     28     19     63
D113V11, multiclass
[1] "Remove cluster labels:" "TXNRD1 MUTATED"        
clus
  TXNRD1 MUTATED TXNRD1 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TXNRD1 MUTATED        1      0      1
  TXNRD1 WILD-TYPE     32     48     30
D113V12, multiclass
[1] "Remove cluster labels:" "TXNRD1 MUTATED"        
clus
  TXNRD1 MUTATED TXNRD1 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"TXNRD1 WILD-TYPE" "TXNRD1 WILD-TYPE" 

Clustering(114) Variable = MECOM MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MECOM MUTATED        2      2      0      0
  MECOM WILD-TYPE     10     16     11     10
D114V1, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             2              10
  CLUS_2             2              16
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MECOM MUTATED        2      0      0      2      0
  MECOM WILD-TYPE     10     10      7      5     15
D114V2, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             0               7
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MECOM MUTATED        0     10      0      0      2
  MECOM WILD-TYPE     56    142     11      5     16
D114V3, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             0              56
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  MECOM MUTATED        1      2      4
  MECOM WILD-TYPE     42     37     49
D114V4, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              37
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  MECOM MUTATED        2      1      1      0      5      2
  MECOM WILD-TYPE     37     35     36     10     35     22
D114V5, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              35
  CLUS_3             1              36
  CLUS_4             0              10
  CLUS_5             5              35
  CLUS_6             2              22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MECOM MUTATED        2      5      1      3
  MECOM WILD-TYPE     63     59     39     14
D114V6, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             2              63
  CLUS_2             5              59
  CLUS_3             1              39
  CLUS_4             3              14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECOM MUTATED        2      6      4
  MECOM WILD-TYPE     77     79     79
D114V7, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             2              77
  CLUS_2             6              79
  CLUS_3             4              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
  MECOM MUTATED        0      1      1      4      2      2      2
  MECOM WILD-TYPE     44     40     16     29     33     29     44
D114V8, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             4              29
  CLUS_5             2              33
  CLUS_6             2              29
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECOM MUTATED        1      4      6
  MECOM WILD-TYPE     68     75     86
D114V9, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              75
  CLUS_3             6              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
  MECOM MUTATED        5      1      4      1
  MECOM WILD-TYPE     68     42     75     44
D114V10, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             5              68
  CLUS_2             1              42
  CLUS_3             4              75
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECOM MUTATED        1      1      4
  MECOM WILD-TYPE     28     18     60
D114V11, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             1              28
  CLUS_2             1              18
  CLUS_3             4              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
  MECOM MUTATED        2      3      1
  MECOM WILD-TYPE     31     45     30
D114V12, multiclass
        clus
vv       MECOM MUTATED MECOM WILD-TYPE
  CLUS_1             2              31
  CLUS_2             3              45
  CLUS_3             1              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(115) Variable = CCDC147 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC147 MUTATED        2      1      1      0
  CCDC147 WILD-TYPE     10     17     10     10
D115V1, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               2                10
  CLUS_2               1                17
  CLUS_3               1                10
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC147 MUTATED        1      0      2      1      0
  CCDC147 WILD-TYPE     11     10      5      6     15
D115V2, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               1                11
  CLUS_2               0                10
  CLUS_3               2                 5
  CLUS_4               1                 6
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC147 MUTATED        0     14      0      0      1
  CCDC147 WILD-TYPE     56    138     11      5     17
D115V3, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              14               138
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               1                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
  CCDC147 MUTATED        3      1      4
  CCDC147 WILD-TYPE     40     38     49
D115V4, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                38
  CLUS_3               4                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 CLUS_4 CLUS_5 CLUS_6
  CCDC147 MUTATED        5      4      2      1      0      1
  CCDC147 WILD-TYPE     34     32     35      9     40     23
D115V5, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               5                34
  CLUS_2               4                32
  CLUS_3               2                35
  CLUS_4               1                 9
  CLUS_5               0                40
  CLUS_6               1                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC147 MUTATED        6      4      2      1
  CCDC147 WILD-TYPE     59     60     38     16
D115V6, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               6                59
  CLUS_2               4                60
  CLUS_3               2                38
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC147 MUTATED        6      6      3
  CCDC147 WILD-TYPE     73     79     80
D115V7, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               6                73
  CLUS_2               6                79
  CLUS_3               3                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
  CCDC147 MUTATED        0      0      2      6      5      2      0
  CCDC147 WILD-TYPE     44     41     15     27     30     29     46
D115V8, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               2                15
  CLUS_4               6                27
  CLUS_5               5                30
  CLUS_6               2                29
  CLUS_7               0                46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC147 MUTATED        4      6      4
  CCDC147 WILD-TYPE     65     73     88
D115V9, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               6                73
  CLUS_3               4                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
  CCDC147 MUTATED        8      1      3      2
  CCDC147 WILD-TYPE     65     42     76     43
D115V10, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               8                65
  CLUS_2               1                42
  CLUS_3               3                76
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC147 MUTATED        1      2      2
  CCDC147 WILD-TYPE     28     17     62
D115V11, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               2                17
  CLUS_3               2                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
  CCDC147 MUTATED        2      0      3
  CCDC147 WILD-TYPE     31     48     28
D115V12, multiclass
        clus
vv       CCDC147 MUTATED CCDC147 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               0                48
  CLUS_3               3                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"

Clustering(116) Variable = SACS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SACS MUTATED        6      3      1      0
  SACS WILD-TYPE      6     15     10     10
D116V1, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            6              6
  CLUS_2            3             15
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SACS MUTATED        2      1      2      5      0
  SACS WILD-TYPE     10      9      5      2     15
D116V2, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1              9
  CLUS_3            2              5
  CLUS_4            5              2
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SACS MUTATED        1     22      0      0      3
  SACS WILD-TYPE     55    130     11      5     15
D116V3, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            1             55
  CLUS_2           22            130
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SACS MUTATED        2      2      5
  SACS WILD-TYPE     41     37     48
D116V4, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            2             41
  CLUS_2            2             37
  CLUS_3            5             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 CLUS_4 CLUS_5 CLUS_6
  SACS MUTATED        5      5      4      4      2      1
  SACS WILD-TYPE     34     31     33      6     38     23
D116V5, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            5             34
  CLUS_2            5             31
  CLUS_3            4             33
  CLUS_4            4              6
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SACS MUTATED        6      7      7      1
  SACS WILD-TYPE     59     57     33     16
D116V6, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            6             59
  CLUS_2            7             57
  CLUS_3            7             33
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SACS MUTATED        7     13      6
  SACS WILD-TYPE     72     72     77
D116V7, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            7             72
  CLUS_2           13             72
  CLUS_3            6             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
  SACS MUTATED        1      2      3      9      7      1      3
  SACS WILD-TYPE     43     39     14     24     28     30     43
D116V8, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            1             43
  CLUS_2            2             39
  CLUS_3            3             14
  CLUS_4            9             24
  CLUS_5            7             28
  CLUS_6            1             30
  CLUS_7            3             43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SACS MUTATED        5     12      7
  SACS WILD-TYPE     64     67     85
D116V9, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            5             64
  CLUS_2           12             67
  CLUS_3            7             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
  SACS MUTATED       13      2      6      3
  SACS WILD-TYPE     60     41     73     42
D116V10, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1           13             60
  CLUS_2            2             41
  CLUS_3            6             73
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SACS MUTATED        2      2      4
  SACS WILD-TYPE     27     17     60
D116V11, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            2             27
  CLUS_2            2             17
  CLUS_3            4             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
  SACS MUTATED        1      3      4
  SACS WILD-TYPE     32     45     27
D116V12, multiclass
        clus
vv       SACS MUTATED SACS WILD-TYPE
  CLUS_1            1             32
  CLUS_2            3             45
  CLUS_3            4             27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(117) Variable = MUTED MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUTED MUTATED        0      1      0      0
  MUTED WILD-TYPE     12     17     11     10
D117V1, multiclass
[1] "Remove cluster labels:" "MUTED MUTATED"         
clus
  MUTED MUTATED MUTED WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUTED MUTATED        1      0      0      0      0
  MUTED WILD-TYPE     11     10      7      7     15
D117V2, multiclass
[1] "Remove cluster labels:" "MUTED MUTATED"         
clus
  MUTED MUTATED MUTED WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUTED MUTATED        0      6      0      0      1
  MUTED WILD-TYPE     56    146     11      5     17
D117V3, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             0              56
  CLUS_2             6             146
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  MUTED MUTATED        0      1      2
  MUTED WILD-TYPE     43     38     51
D117V4, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             0              43
  CLUS_2             1              38
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MUTED MUTATED        0      2      1      2      0      1
  MUTED WILD-TYPE     39     34     36      8     40     23
D117V5, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             0              39
  CLUS_2             2              34
  CLUS_3             1              36
  CLUS_4             2               8
  CLUS_5             0              40
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUTED MUTATED        2      0      3      1
  MUTED WILD-TYPE     63     64     37     16
D117V6, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             2              63
  CLUS_2             0              64
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUTED MUTATED        1      3      3
  MUTED WILD-TYPE     78     82     80
D117V7, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             1              78
  CLUS_2             3              82
  CLUS_3             3              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
  MUTED MUTATED        0      0      0      2      3      0      2
  MUTED WILD-TYPE     44     41     17     31     32     31     44
D117V8, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             2              31
  CLUS_5             3              32
  CLUS_6             0              31
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUTED MUTATED        1      1      4
  MUTED WILD-TYPE     68     78     88
D117V9, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             1              68
  CLUS_2             1              78
  CLUS_3             4              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
  MUTED MUTATED        3      0      3      0
  MUTED WILD-TYPE     70     43     76     45
D117V10, multiclass
        clus
vv       MUTED MUTATED MUTED WILD-TYPE
  CLUS_1             3              70
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUTED MUTATED        0      0      2
  MUTED WILD-TYPE     29     19     62
D117V11, multiclass
[1] "Remove cluster labels:" "MUTED MUTATED"         
clus
  MUTED MUTATED MUTED WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUTED MUTATED        0      1      1
  MUTED WILD-TYPE     33     47     30
D117V12, multiclass
[1] "Remove cluster labels:" "MUTED MUTATED"         
clus
  MUTED MUTATED MUTED WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" "MUTED WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"MUTED WILD-TYPE" "MUTED WILD-TYPE" 

Clustering(118) Variable = SLC44A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC44A3 MUTATED        1      0      0      0
  SLC44A3 WILD-TYPE     11     18     11     10
D118V1, multiclass
[1] "Remove cluster labels:" "SLC44A3 MUTATED"       
clus
  SLC44A3 MUTATED SLC44A3 WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A052        TCGA-AP-A053        TCGA-AP-A054 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A3 MUTATED        0      0      0      1      0
  SLC44A3 WILD-TYPE     12     10      7      6     15
D118V2, multiclass
[1] "Remove cluster labels:" "SLC44A3 MUTATED"       
clus
  SLC44A3 MUTATED SLC44A3 WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A052        TCGA-AP-A053        TCGA-AP-A054 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC44A3 MUTATED        0      5      0      0      1
  SLC44A3 WILD-TYPE     56    147     11      5     17
D118V3, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               0                56
  CLUS_2               5               147
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               1                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
  SLC44A3 MUTATED        1      2      1
  SLC44A3 WILD-TYPE     42     37     52
D118V4, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                37
  CLUS_3               1                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
  SLC44A3 MUTATED        2      1      1      1      1      0
  SLC44A3 WILD-TYPE     37     35     36      9     39     24
D118V5, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               2                37
  CLUS_2               1                35
  CLUS_3               1                36
  CLUS_4               1                 9
  CLUS_5               1                39
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC44A3 MUTATED        1      4      1      0
  SLC44A3 WILD-TYPE     64     60     39     17
D118V6, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               4                60
  CLUS_3               1                39
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A3 MUTATED        2      2      2
  SLC44A3 WILD-TYPE     77     83     81
D118V7, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               2                77
  CLUS_2               2                83
  CLUS_3               2                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
  SLC44A3 MUTATED        0      0      0      2      2      0      2
  SLC44A3 WILD-TYPE     44     41     17     31     33     31     44
D118V8, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               0                17
  CLUS_4               2                31
  CLUS_5               2                33
  CLUS_6               0                31
  CLUS_7               2                44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A3 MUTATED        1      3      2
  SLC44A3 WILD-TYPE     68     76     90
D118V9, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               3                76
  CLUS_3               2                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
  SLC44A3 MUTATED        4      0      2      0
  SLC44A3 WILD-TYPE     69     43     77     45
D118V10, multiclass
        clus
vv       SLC44A3 MUTATED SLC44A3 WILD-TYPE
  CLUS_1               4                69
  CLUS_2               0                43
  CLUS_3               2                77
  CLUS_4               0                45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A3 MUTATED        0      1      1
  SLC44A3 WILD-TYPE     29     18     63
D118V11, multiclass
[1] "Remove cluster labels:" "SLC44A3 MUTATED"       
clus
  SLC44A3 MUTATED SLC44A3 WILD-TYPE 
                2               110 
       TCGA-A5-A0GB        TCGA-A5-A0GN        TCGA-A5-A0GQ        TCGA-AJ-A23M 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A059        TCGA-AP-A0LF        TCGA-AP-A1DQ        TCGA-AX-A064 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A06H        TCGA-AX-A06L        TCGA-AX-A1C8        TCGA-AX-A1CP 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A2H5        TCGA-AX-A2HF        TCGA-B5-A0JR        TCGA-B5-A0JT 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A0K8        TCGA-B5-A11G        TCGA-B5-A11H        TCGA-B5-A11J 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A11M        TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A11R        TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11W 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A11Z        TCGA-B5-A121        TCGA-B5-A1MU        TCGA-B5-A1MY 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BG-A0VV        TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0YV 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BG-A186        TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BG-A18C        TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BK-A139        TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0UA 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BS-A0V6        TCGA-BS-A0V7        TCGA-BS-A0V8        TCGA-D1-A0ZN 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A0ZO        TCGA-D1-A0ZQ        TCGA-D1-A0ZS        TCGA-D1-A102 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A15V        TCGA-D1-A15W        TCGA-D1-A15X        TCGA-D1-A160 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A161        TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A168        TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A16E        TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A16J        TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A16R        TCGA-D1-A16S        TCGA-D1-A16Y        TCGA-D1-A174 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC44A3 MUTATED        0      1      1
  SLC44A3 WILD-TYPE     33     47     30
D118V12, multiclass
[1] "Remove cluster labels:" "SLC44A3 MUTATED"       
clus
  SLC44A3 MUTATED SLC44A3 WILD-TYPE 
                2               110 
       TCGA-A5-A0GB        TCGA-A5-A0GN        TCGA-A5-A0GQ        TCGA-AJ-A23M 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AP-A059        TCGA-AP-A0LF        TCGA-AP-A1DQ        TCGA-AX-A064 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A06H        TCGA-AX-A06L        TCGA-AX-A1C8        TCGA-AX-A1CP 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-AX-A2H5        TCGA-AX-A2HF        TCGA-B5-A0JR        TCGA-B5-A0JT 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A0K8        TCGA-B5-A11G        TCGA-B5-A11H        TCGA-B5-A11J 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A11M        TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A11R        TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11W 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-B5-A11Z        TCGA-B5-A121        TCGA-B5-A1MU        TCGA-B5-A1MY 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BG-A0VV        TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0YV 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BG-A186        TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BG-A18C        TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BK-A139        TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0UA 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-BS-A0V6        TCGA-BS-A0V7        TCGA-BS-A0V8        TCGA-D1-A0ZN 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A0ZO        TCGA-D1-A0ZQ        TCGA-D1-A0ZS        TCGA-D1-A102 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A15V        TCGA-D1-A15W        TCGA-D1-A15X        TCGA-D1-A160 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A161        TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A168        TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A16E        TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A16J        TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A16R        TCGA-D1-A16S        TCGA-D1-A16Y        TCGA-D1-A174 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"SLC44A3 WILD-TYPE" "SLC44A3 WILD-TYPE" 

Clustering(119) Variable = ZNF674 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF674 MUTATED        1      1      0      0
  ZNF674 WILD-TYPE     11     17     11     10
D119V1, multiclass
[1] "Remove cluster labels:" "ZNF674 MUTATED"        
clus
  ZNF674 MUTATED ZNF674 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H       TCGA-AP-A05J 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8       TCGA-AP-A0L9 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH       TCGA-AP-A0LJ 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV       TCGA-AX-A05S 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF674 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF674 MUTATED        1      0      0      1      0
  ZNF674 WILD-TYPE     11     10      7      6     15
D119V2, multiclass
[1] "Remove cluster labels:" "ZNF674 MUTATED"        
clus
  ZNF674 MUTATED ZNF674 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H       TCGA-AP-A05J 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8       TCGA-AP-A0L9 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH       TCGA-AP-A0LJ 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV       TCGA-AX-A05S 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" "ZNF674 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF674 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF674 MUTATED        1     11      0      0      2
  ZNF674 WILD-TYPE     55    141     11      5     16
D119V3, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             11              141
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF674 MUTATED        2      1      3
  ZNF674 WILD-TYPE     41     38     50
D119V4, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               38
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF674 MUTATED        3      5      1      2      1      0
  ZNF674 WILD-TYPE     36     31     36      8     39     24
D119V5, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              5               31
  CLUS_3              1               36
  CLUS_4              2                8
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF674 MUTATED        4      5      3      0
  ZNF674 WILD-TYPE     61     59     37     17
D119V6, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              5               59
  CLUS_3              3               37
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF674 MUTATED        7      5      2
  ZNF674 WILD-TYPE     72     80     81
D119V7, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              7               72
  CLUS_2              5               80
  CLUS_3              2               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
  ZNF674 MUTATED        0      1      2      4      6      0      1
  ZNF674 WILD-TYPE     44     40     15     29     29     31     45
D119V8, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              2               15
  CLUS_4              4               29
  CLUS_5              6               29
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF674 MUTATED        4      7      2
  ZNF674 WILD-TYPE     65     72     90
D119V9, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              7               72
  CLUS_3              2               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
  ZNF674 MUTATED        7      1      3      2
  ZNF674 WILD-TYPE     66     42     76     43
D119V10, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF674 MUTATED        0      2      2
  ZNF674 WILD-TYPE     29     17     62
D119V11, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              2               17
  CLUS_3              2               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
  ZNF674 MUTATED        1      1      2
  ZNF674 WILD-TYPE     32     47     29
D119V12, multiclass
        clus
vv       ZNF674 MUTATED ZNF674 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[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 = CCDC144A MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC144A MUTATED        2      2      1      0
  CCDC144A WILD-TYPE     10     16     10     10
D120V1, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                2                 16
  CLUS_3                1                 10
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      2      1      0
  CCDC144A WILD-TYPE     10     10      5      6     15
D120V2, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                0                 10
  CLUS_3                2                  5
  CLUS_4                1                  6
  CLUS_5                0                 15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2     14      0      0      2
  CCDC144A WILD-TYPE     54    138     11      5     16
D120V3, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                2                 54
  CLUS_2               14                138
  CLUS_3                0                 11
  CLUS_4                0                  5
  CLUS_5                2                 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
  CCDC144A MUTATED        3      1      5
  CCDC144A WILD-TYPE     40     38     48
D120V4, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                3                 40
  CLUS_2                1                 38
  CLUS_3                5                 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 CLUS_4 CLUS_5 CLUS_6
  CCDC144A MUTATED        4      4      4      2      1      0
  CCDC144A WILD-TYPE     35     32     33      8     39     24
D120V5, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                4                 35
  CLUS_2                4                 32
  CLUS_3                4                 33
  CLUS_4                2                  8
  CLUS_5                1                 39
  CLUS_6                0                 24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      6      4      0
  CCDC144A WILD-TYPE     60     58     36     17
D120V6, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                5                 60
  CLUS_2                6                 58
  CLUS_3                4                 36
  CLUS_4                0                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      7      4
  CCDC144A WILD-TYPE     72     78     79
D120V7, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                7                 72
  CLUS_2                7                 78
  CLUS_3                4                 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
  CCDC144A MUTATED        0      1      2      6      6      1      2
  CCDC144A WILD-TYPE     44     40     15     27     29     30     44
D120V8, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                0                 44
  CLUS_2                1                 40
  CLUS_3                2                 15
  CLUS_4                6                 27
  CLUS_5                6                 29
  CLUS_6                1                 30
  CLUS_7                2                 44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        4      8      5
  CCDC144A WILD-TYPE     65     71     87
D120V9, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                4                 65
  CLUS_2                8                 71
  CLUS_3                5                 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
  CCDC144A MUTATED        7      2      4      4
  CCDC144A WILD-TYPE     66     41     75     41
D120V10, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                7                 66
  CLUS_2                2                 41
  CLUS_3                4                 75
  CLUS_4                4                 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
  CCDC144A MUTATED        1      1      5
  CCDC144A WILD-TYPE     28     18     59
D120V11, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                1                 18
  CLUS_3                5                 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
  CCDC144A MUTATED        1      2      4
  CCDC144A WILD-TYPE     32     46     27
D120V12, multiclass
        clus
vv       CCDC144A MUTATED CCDC144A WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                2                 46
  CLUS_3                4                 27
[1] 3 2
[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 = OR8B8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR8B8 MUTATED        1      1      0      0
  OR8B8 WILD-TYPE     11     17     11     10
D121V1, multiclass
[1] "Remove cluster labels:" "OR8B8 MUTATED"         
clus
  OR8B8 MUTATED OR8B8 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GM      TCGA-A5-A0GP      TCGA-A5-A0GU 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BK-A0CC 
"OR8B8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8B8 MUTATED        1      0      1      0      0
  OR8B8 WILD-TYPE     11     10      6      7     15
D121V2, multiclass
[1] "Remove cluster labels:" "OR8B8 MUTATED"         
clus
  OR8B8 MUTATED OR8B8 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GM      TCGA-A5-A0GP      TCGA-A5-A0GU 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BK-A0CC 
"OR8B8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR8B8 MUTATED        0      5      0      0      2
  OR8B8 WILD-TYPE     56    147     11      5     16
D121V3, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             5             147
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  OR8B8 MUTATED        1      0      2
  OR8B8 WILD-TYPE     42     39     51
D121V4, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             0              39
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OR8B8 MUTATED        2      3      1      0      0      0
  OR8B8 WILD-TYPE     37     33     36     10     40     24
D121V5, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             3              33
  CLUS_3             1              36
  CLUS_4             0              10
  CLUS_5             0              40
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR8B8 MUTATED        2      3      1      0
  OR8B8 WILD-TYPE     63     61     39     17
D121V6, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3              61
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8B8 MUTATED        4      2      1
  OR8B8 WILD-TYPE     75     83     82
D121V7, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             2              83
  CLUS_3             1              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
  OR8B8 MUTATED        0      0      2      2      3      0      0
  OR8B8 WILD-TYPE     44     41     15     31     32     31     46
D121V8, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             2              15
  CLUS_4             2              31
  CLUS_5             3              32
  CLUS_6             0              31
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8B8 MUTATED        3      3      1
  OR8B8 WILD-TYPE     66     76     91
D121V9, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             3              76
  CLUS_3             1              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
  OR8B8 MUTATED        4      1      2      0
  OR8B8 WILD-TYPE     69     42     77     45
D121V10, multiclass
        clus
vv       OR8B8 MUTATED OR8B8 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             1              42
  CLUS_3             2              77
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8B8 MUTATED        0      1      1
  OR8B8 WILD-TYPE     29     18     63
D121V11, multiclass
[1] "Remove cluster labels:" "OR8B8 MUTATED"         
clus
  OR8B8 MUTATED OR8B8 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A064 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR8B8 MUTATED        1      0      1
  OR8B8 WILD-TYPE     32     48     30
D121V12, multiclass
[1] "Remove cluster labels:" "OR8B8 MUTATED"         
clus
  OR8B8 MUTATED OR8B8 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A064 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"OR8B8 WILD-TYPE" "OR8B8 WILD-TYPE" 

Clustering(122) Variable = LNX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LNX2 MUTATED        2      1      0      0
  LNX2 WILD-TYPE     10     17     11     10
D122V1, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      1      1      0
  LNX2 WILD-TYPE     11     10      6      6     15
D122V2, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     12      0      0      2
  LNX2 WILD-TYPE     56    140     11      5     16
D122V3, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           12            140
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  LNX2 MUTATED        0      0      7
  LNX2 WILD-TYPE     43     39     46
D122V4, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            0             43
  CLUS_2            0             39
  CLUS_3            7             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 CLUS_4 CLUS_5 CLUS_6
  LNX2 MUTATED        2      4      2      1      2      1
  LNX2 WILD-TYPE     37     32     35      9     38     23
D122V5, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            4             32
  CLUS_3            2             35
  CLUS_4            1              9
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      4      3      1
  LNX2 WILD-TYPE     61     60     37     16
D122V6, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            4             61
  CLUS_2            4             60
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      9      1
  LNX2 WILD-TYPE     75     76     82
D122V7, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            9             76
  CLUS_3            1             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
  LNX2 MUTATED        0      1      0      5      6      1      1
  LNX2 WILD-TYPE     44     40     17     28     29     30     45
D122V8, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            0             17
  CLUS_4            5             28
  CLUS_5            6             29
  CLUS_6            1             30
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      7      4
  LNX2 WILD-TYPE     66     72     88
D122V9, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            7             72
  CLUS_3            4             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
  LNX2 MUTATED        8      2      2      2
  LNX2 WILD-TYPE     65     41     77     43
D122V10, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            8             65
  CLUS_2            2             41
  CLUS_3            2             77
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      0      2
  LNX2 WILD-TYPE     28     19     62
D122V11, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            1             28
  CLUS_2            0             19
  CLUS_3            2             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
  LNX2 MUTATED        2      1      0
  LNX2 WILD-TYPE     31     47     31
D122V12, multiclass
        clus
vv       LNX2 MUTATED LNX2 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            1             47
  CLUS_3            0             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"

Clustering(123) Variable = TMEM62 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM62 MUTATED        2      0      0      0
  TMEM62 WILD-TYPE     10     18     11     10
D123V1, multiclass
[1] "Remove cluster labels:" "TMEM62 MUTATED"        
clus
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BK-A0CC 
"TMEM62 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM62 MUTATED        0      0      1      1      0
  TMEM62 WILD-TYPE     12     10      6      6     15
D123V2, multiclass
[1] "Remove cluster labels:" "TMEM62 MUTATED"        
clus
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BK-A0CC 
"TMEM62 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM62 MUTATED        0      8      0      0      1
  TMEM62 WILD-TYPE     56    144     11      5     17
D123V3, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  TMEM62 MUTATED        1      0      2
  TMEM62 WILD-TYPE     42     39     51
D123V4, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        3      1      2      0      0      1
  TMEM62 WILD-TYPE     36     35     35     10     40     23
D123V5, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              1               35
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      3      1      1
  TMEM62 WILD-TYPE     63     61     39     16
D123V6, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              3               61
  CLUS_3              1               39
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      6      1
  TMEM62 WILD-TYPE     77     79     82
D123V7, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              6               79
  CLUS_3              1               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
  TMEM62 MUTATED        0      1      0      4      3      0      1
  TMEM62 WILD-TYPE     44     40     17     29     32     31     45
D123V8, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              0               17
  CLUS_4              4               29
  CLUS_5              3               32
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      3      4
  TMEM62 WILD-TYPE     68     76     88
D123V9, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              3               76
  CLUS_3              4               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
  TMEM62 MUTATED        5      1      2      0
  TMEM62 WILD-TYPE     68     42     77     45
D123V10, multiclass
        clus
vv       TMEM62 MUTATED TMEM62 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              2               77
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1      1
  TMEM62 WILD-TYPE     29     18     63
D123V11, multiclass
[1] "Remove cluster labels:" "TMEM62 MUTATED"        
clus
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VX       TCGA-BG-A0YV       TCGA-BG-A186 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA       TCGA-BS-A0V6 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102       TCGA-D1-A15V 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160       TCGA-D1-A161 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM62 MUTATED        0      1      1
  TMEM62 WILD-TYPE     33     47     30
D123V12, multiclass
[1] "Remove cluster labels:" "TMEM62 MUTATED"        
clus
  TMEM62 MUTATED TMEM62 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VX       TCGA-BG-A0YV       TCGA-BG-A186 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA       TCGA-BS-A0V6 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102       TCGA-D1-A15V 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160       TCGA-D1-A161 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"TMEM62 WILD-TYPE" "TMEM62 WILD-TYPE" 

Clustering(124) Variable = ATF7IP MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATF7IP MUTATED        2      0      1      0
  ATF7IP WILD-TYPE     10     18     10     10
D124V1, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               18
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATF7IP MUTATED        0      0      2      1      0
  ATF7IP WILD-TYPE     12     10      5      6     15
D124V2, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              0               12
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATF7IP MUTATED        0     13      1      0      2
  ATF7IP WILD-TYPE     56    139     10      5     16
D124V3, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              0               56
  CLUS_2             13              139
  CLUS_3              1               10
  CLUS_4              0                5
  CLUS_5              2               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
  ATF7IP MUTATED        2      1      8
  ATF7IP WILD-TYPE     41     38     45
D124V4, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               38
  CLUS_3              8               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 CLUS_4 CLUS_5 CLUS_6
  ATF7IP MUTATED        2      5      2      0      3      1
  ATF7IP WILD-TYPE     37     31     35     10     37     23
D124V5, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              2               37
  CLUS_2              5               31
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              3               37
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATF7IP MUTATED        5      5      2      1
  ATF7IP WILD-TYPE     60     59     38     16
D124V6, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              5               60
  CLUS_2              5               59
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATF7IP MUTATED        7      4      6
  ATF7IP WILD-TYPE     72     81     77
D124V7, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              7               72
  CLUS_2              4               81
  CLUS_3              6               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
  ATF7IP MUTATED        1      0      1      4      6      3      2
  ATF7IP WILD-TYPE     43     41     16     29     29     28     44
D124V8, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              4               29
  CLUS_5              6               29
  CLUS_6              3               28
  CLUS_7              2               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATF7IP MUTATED        4      7      6
  ATF7IP WILD-TYPE     65     72     86
D124V9, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              4               65
  CLUS_2              7               72
  CLUS_3              6               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
  ATF7IP MUTATED        8      1      6      2
  ATF7IP WILD-TYPE     65     42     73     43
D124V10, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              8               65
  CLUS_2              1               42
  CLUS_3              6               73
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATF7IP MUTATED        3      2      2
  ATF7IP WILD-TYPE     26     17     62
D124V11, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              3               26
  CLUS_2              2               17
  CLUS_3              2               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
  ATF7IP MUTATED        5      0      2
  ATF7IP WILD-TYPE     28     48     29
D124V12, multiclass
        clus
vv       ATF7IP MUTATED ATF7IP WILD-TYPE
  CLUS_1              5               28
  CLUS_2              0               48
  CLUS_3              2               29
[1] 3 2
[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 = IL20 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL20 MUTATED        3      1      0      0
  IL20 WILD-TYPE      9     17     11     10
D125V1, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            3              9
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL20 MUTATED        1      0      1      2      0
  IL20 WILD-TYPE     11     10      6      5     15
D125V2, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            2              5
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL20 MUTATED        0      6      0      0      1
  IL20 WILD-TYPE     56    146     11      5     17
D125V3, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            6            146
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  IL20 MUTATED        1      1      0
  IL20 WILD-TYPE     42     38     53
D125V4, multiclass
[1] "Remove cluster labels:" "IL20 MUTATED"          
clus
  IL20 MUTATED IL20 WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A06H     TCGA-AX-A06L 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AX-A0IS     TCGA-AX-A0J0     TCGA-AX-A1C7     TCGA-AX-A1C8 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JT 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F     TCGA-B5-A11G 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J     TCGA-B5-A11M 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V     TCGA-B5-A11W 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z     TCGA-B5-A121 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT     TCGA-BG-A0VV 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ     TCGA-BG-A0W1 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV     TCGA-BG-A186 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5     TCGA-BS-A0U9 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6     TCGA-BS-A0V7 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17Q 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-FI-A2F8 
"IL20 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL20 MUTATED        3      1      0      1      1      0
  IL20 WILD-TYPE     36     35     37      9     39     24
D125V5, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            3             36
  CLUS_2            1             35
  CLUS_3            0             37
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL20 MUTATED        2      3      1      0
  IL20 WILD-TYPE     63     61     39     17
D125V6, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3             61
  CLUS_3            1             39
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL20 MUTATED        3      3      1
  IL20 WILD-TYPE     76     82     82
D125V7, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            3             76
  CLUS_2            3             82
  CLUS_3            1             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
  IL20 MUTATED        0      1      0      4      2      0      0
  IL20 WILD-TYPE     44     40     17     29     33     31     46
D125V8, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            0             17
  CLUS_4            4             29
  CLUS_5            2             33
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL20 MUTATED        1      4      1
  IL20 WILD-TYPE     68     75     91
D125V9, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             75
  CLUS_3            1             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
  IL20 MUTATED        3      2      1      0
  IL20 WILD-TYPE     70     41     78     45
D125V10, multiclass
        clus
vv       IL20 MUTATED IL20 WILD-TYPE
  CLUS_1            3             70
  CLUS_2            2             41
  CLUS_3            1             78
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL20 MUTATED        0      1      1
  IL20 WILD-TYPE     29     18     63
D125V11, multiclass
[1] "Remove cluster labels:" "IL20 MUTATED"          
clus
  IL20 MUTATED IL20 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IL20 MUTATED        0      1      1
  IL20 WILD-TYPE     33     47     30
D125V12, multiclass
[1] "Remove cluster labels:" "IL20 MUTATED"          
clus
  IL20 MUTATED IL20 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" "IL20 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"IL20 WILD-TYPE" "IL20 WILD-TYPE" 

Clustering(126) Variable = C3AR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C3AR1 MUTATED        2      1      0      0
  C3AR1 WILD-TYPE     10     17     11     10
D126V1, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3AR1 MUTATED        1      0      1      1      0
  C3AR1 WILD-TYPE     11     10      6      6     15
D126V2, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C3AR1 MUTATED        0      8      0      0      0
  C3AR1 WILD-TYPE     56    144     11      5     18
D126V3, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             8             144
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  C3AR1 MUTATED        0      0      2
  C3AR1 WILD-TYPE     43     39     51
D126V4, multiclass
[1] "Remove cluster labels:" "C3AR1 MUTATED"         
clus
  C3AR1 MUTATED C3AR1 WILD-TYPE 
              2             133 
     TCGA-A5-A0GQ      TCGA-A5-A0VO      TCGA-AJ-A23M      TCGA-AP-A059 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A06H 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AX-A06L      TCGA-AX-A0IS      TCGA-AX-A0J0      TCGA-AX-A1C7 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AX-A1C8      TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11E      TCGA-B5-A11F 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11I      TCGA-B5-A11J 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11V 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11X      TCGA-B5-A11Y      TCGA-B5-A11Z 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY      TCGA-BG-A0VT 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0VZ 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A0W1      TCGA-BG-A0W2      TCGA-BG-A0YU      TCGA-BG-A0YV 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0U5 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BS-A0U9      TCGA-BS-A0UL      TCGA-BS-A0V6      TCGA-BS-A0V7 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BS-A0V8      TCGA-BS-A0WQ      TCGA-D1-A0ZN      TCGA-D1-A0ZO 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A0ZP      TCGA-D1-A0ZQ      TCGA-D1-A0ZR      TCGA-D1-A0ZS 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A0ZU      TCGA-D1-A0ZV      TCGA-D1-A0ZZ      TCGA-D1-A101 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A103      TCGA-D1-A15V      TCGA-D1-A15W 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A15X      TCGA-D1-A15Z      TCGA-D1-A160      TCGA-D1-A161 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T      TCGA-D1-A17U 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH      TCGA-DI-A1NN 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8      TCGA-EY-A1GS 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW      TCGA-FI-A2EX 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-FI-A2F8 
"C3AR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C3AR1 MUTATED        1      1      2      2      1      0
  C3AR1 WILD-TYPE     38     35     35      8     39     24
D126V5, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              35
  CLUS_3             2              35
  CLUS_4             2               8
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C3AR1 MUTATED        1      2      4      0
  C3AR1 WILD-TYPE     64     62     36     17
D126V6, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2              62
  CLUS_3             4              36
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C3AR1 MUTATED        1      3      4
  C3AR1 WILD-TYPE     78     82     79
D126V7, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             1              78
  CLUS_2             3              82
  CLUS_3             4              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
  C3AR1 MUTATED        0      0      0      3      2      0      3
  C3AR1 WILD-TYPE     44     41     17     30     33     31     43
D126V8, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             3              30
  CLUS_5             2              33
  CLUS_6             0              31
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C3AR1 MUTATED        1      2      4
  C3AR1 WILD-TYPE     68     77     88
D126V9, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              77
  CLUS_3             4              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
  C3AR1 MUTATED        3      1      3      0
  C3AR1 WILD-TYPE     70     42     76     45
D126V10, multiclass
        clus
vv       C3AR1 MUTATED C3AR1 WILD-TYPE
  CLUS_1             3              70
  CLUS_2             1              42
  CLUS_3             3              76
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C3AR1 MUTATED        0      0      2
  C3AR1 WILD-TYPE     29     19     62
D126V11, multiclass
[1] "Remove cluster labels:" "C3AR1 MUTATED"         
clus
  C3AR1 MUTATED C3AR1 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C3AR1 MUTATED        0      1      1
  C3AR1 WILD-TYPE     33     47     30
D126V12, multiclass
[1] "Remove cluster labels:" "C3AR1 MUTATED"         
clus
  C3AR1 MUTATED C3AR1 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"C3AR1 WILD-TYPE" "C3AR1 WILD-TYPE" 

Clustering(127) Variable = PKD2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD2 MUTATED        1      1      1      0
  PKD2 WILD-TYPE     11     17     10     10
D127V1, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKD2 MUTATED        1      0      1      0      1
  PKD2 WILD-TYPE     11     10      6      7     14
D127V2, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            0              7
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PKD2 MUTATED        0      5      1      0      2
  PKD2 WILD-TYPE     56    147     10      5     16
D127V3, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            5            147
  CLUS_3            1             10
  CLUS_4            0              5
  CLUS_5            2             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
  PKD2 MUTATED        0      0      2
  PKD2 WILD-TYPE     43     39     51
D127V4, multiclass
[1] "Remove cluster labels:" "PKD2 MUTATED"          
clus
  PKD2 MUTATED PKD2 WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A0IS     TCGA-AX-A0J0     TCGA-AX-A1C7 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A0W1     TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BS-A0U9     TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-FI-A2F8 
"PKD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PKD2 MUTATED        1      3      1      1      0      0
  PKD2 WILD-TYPE     38     33     36      9     40     24
D127V5, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            1             36
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD2 MUTATED        2      2      2      0
  PKD2 WILD-TYPE     63     62     38     17
D127V6, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2             62
  CLUS_3            2             38
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PKD2 MUTATED        2      3      3
  PKD2 WILD-TYPE     77     82     80
D127V7, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            2             77
  CLUS_2            3             82
  CLUS_3            3             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
  PKD2 MUTATED        0      1      0      2      3      0      2
  PKD2 WILD-TYPE     44     40     17     31     32     31     44
D127V8, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            0             17
  CLUS_4            2             31
  CLUS_5            3             32
  CLUS_6            0             31
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PKD2 MUTATED        1      3      3
  PKD2 WILD-TYPE     68     76     89
D127V9, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            3             76
  CLUS_3            3             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
  PKD2 MUTATED        1      2      4      0
  PKD2 WILD-TYPE     72     41     75     45
D127V10, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             72
  CLUS_2            2             41
  CLUS_3            4             75
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PKD2 MUTATED        0      0      2
  PKD2 WILD-TYPE     29     19     62
D127V11, multiclass
[1] "Remove cluster labels:" "PKD2 MUTATED"          
clus
  PKD2 MUTATED PKD2 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A0ZN     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PKD2 MUTATED        0      1      1
  PKD2 WILD-TYPE     33     47     30
D127V12, multiclass
[1] "Remove cluster labels:" "PKD2 MUTATED"          
clus
  PKD2 MUTATED PKD2 WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A0ZN     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"PKD2 WILD-TYPE" "PKD2 WILD-TYPE" 

Clustering(128) Variable = BMP5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMP5 MUTATED        2      2      1      0
  BMP5 WILD-TYPE     10     16     10     10
D128V1, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            2             16
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMP5 MUTATED        2      0      2      1      0
  BMP5 WILD-TYPE     10     10      5      6     15
D128V2, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMP5 MUTATED        1      9      1      0      2
  BMP5 WILD-TYPE     55    143     10      5     16
D128V3, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            1             55
  CLUS_2            9            143
  CLUS_3            1             10
  CLUS_4            0              5
  CLUS_5            2             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
  BMP5 MUTATED        2      1      2
  BMP5 WILD-TYPE     41     38     51
D128V4, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            2             51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BMP5 MUTATED        1      2      2      2      1      0
  BMP5 WILD-TYPE     38     34     35      8     39     24
D128V5, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            2             34
  CLUS_3            2             35
  CLUS_4            2              8
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMP5 MUTATED        2      2      4      0
  BMP5 WILD-TYPE     63     62     36     17
D128V6, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2             62
  CLUS_3            4             36
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BMP5 MUTATED        5      4      4
  BMP5 WILD-TYPE     74     81     79
D128V7, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            5             74
  CLUS_2            4             81
  CLUS_3            4             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
  BMP5 MUTATED        0      0      1      4      5      1      2
  BMP5 WILD-TYPE     44     41     16     29     30     30     44
D128V8, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            4             29
  CLUS_5            5             30
  CLUS_6            1             30
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BMP5 MUTATED        4      5      3
  BMP5 WILD-TYPE     65     74     89
D128V9, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            4             65
  CLUS_2            5             74
  CLUS_3            3             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
  BMP5 MUTATED        4      1      4      3
  BMP5 WILD-TYPE     69     42     75     42
D128V10, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            1             42
  CLUS_3            4             75
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BMP5 MUTATED        2      0      2
  BMP5 WILD-TYPE     27     19     62
D128V11, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            2             27
  CLUS_2            0             19
  CLUS_3            2             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
  BMP5 MUTATED        2      1      1
  BMP5 WILD-TYPE     31     47     30
D128V12, multiclass
        clus
vv       BMP5 MUTATED BMP5 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            1             47
  CLUS_3            1             30
[1] 3 2
[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 = OR52I2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR52I2 MUTATED        1      2      0      0
  OR52I2 WILD-TYPE     11     16     11     10
D129V1, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR52I2 MUTATED        1      1      0      1      0
  OR52I2 WILD-TYPE     11      9      7      6     15
D129V2, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              1                9
  CLUS_3              0                7
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR52I2 MUTATED        1      6      0      0      1
  OR52I2 WILD-TYPE     55    146     11      5     17
D129V3, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               55
  CLUS_2              6              146
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  OR52I2 MUTATED        0      0      4
  OR52I2 WILD-TYPE     43     39     49
D129V4, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              0               39
  CLUS_3              4               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 CLUS_4 CLUS_5 CLUS_6
  OR52I2 MUTATED        1      3      1      0      1      0
  OR52I2 WILD-TYPE     38     33     36     10     39     24
D129V5, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              3               33
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR52I2 MUTATED        4      1      1      0
  OR52I2 WILD-TYPE     61     63     39     17
D129V6, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              1               63
  CLUS_3              1               39
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52I2 MUTATED        5      1      2
  OR52I2 WILD-TYPE     74     84     81
D129V7, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              1               84
  CLUS_3              2               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
  OR52I2 MUTATED        1      0      0      2      4      0      1
  OR52I2 WILD-TYPE     43     41     17     31     31     31     45
D129V8, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              2               31
  CLUS_5              4               31
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52I2 MUTATED        3      2      2
  OR52I2 WILD-TYPE     66     77     90
D129V9, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              2               77
  CLUS_3              2               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
  OR52I2 MUTATED        2      0      3      2
  OR52I2 WILD-TYPE     71     43     76     43
D129V10, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              2               71
  CLUS_2              0               43
  CLUS_3              3               76
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52I2 MUTATED        1      0      2
  OR52I2 WILD-TYPE     28     19     62
D129V11, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              0               19
  CLUS_3              2               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
  OR52I2 MUTATED        1      1      1
  OR52I2 WILD-TYPE     32     47     30
D129V12, multiclass
        clus
vv       OR52I2 MUTATED OR52I2 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              1               47
  CLUS_3              1               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(130) Variable = C1ORF100 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF100 MUTATED        2      1      0      0
  C1ORF100 WILD-TYPE     10     17     11     10
D130V1, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                1                 17
  CLUS_3                0                 11
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF100 MUTATED        1      0      1      1      0
  C1ORF100 WILD-TYPE     11     10      6      6     15
D130V2, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                 10
  CLUS_3                1                  6
  CLUS_4                1                  6
  CLUS_5                0                 15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF100 MUTATED        0      6      0      0      3
  C1ORF100 WILD-TYPE     56    146     11      5     15
D130V3, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                0                 56
  CLUS_2                6                146
  CLUS_3                0                 11
  CLUS_4                0                  5
  CLUS_5                3                 15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF100 MUTATED        1      1      1
  C1ORF100 WILD-TYPE     42     38     52
D130V4, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                1                 38
  CLUS_3                1                 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
  C1ORF100 MUTATED        2      3      1      0      1      0
  C1ORF100 WILD-TYPE     37     33     36     10     39     24
D130V5, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                2                 37
  CLUS_2                3                 33
  CLUS_3                1                 36
  CLUS_4                0                 10
  CLUS_5                1                 39
  CLUS_6                0                 24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF100 MUTATED        1      5      1      0
  C1ORF100 WILD-TYPE     64     59     39     17
D130V6, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                1                 64
  CLUS_2                5                 59
  CLUS_3                1                 39
  CLUS_4                0                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF100 MUTATED        3      5      1
  C1ORF100 WILD-TYPE     76     80     82
D130V7, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                3                 76
  CLUS_2                5                 80
  CLUS_3                1                 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
  C1ORF100 MUTATED        0      0      1      4      3      0      1
  C1ORF100 WILD-TYPE     44     41     16     29     32     31     45
D130V8, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                0                 44
  CLUS_2                0                 41
  CLUS_3                1                 16
  CLUS_4                4                 29
  CLUS_5                3                 32
  CLUS_6                0                 31
  CLUS_7                1                 45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF100 MUTATED        2      6      1
  C1ORF100 WILD-TYPE     67     73     91
D130V9, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                6                 73
  CLUS_3                1                 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
  C1ORF100 MUTATED        5      1      2      1
  C1ORF100 WILD-TYPE     68     42     77     44
D130V10, multiclass
        clus
vv       C1ORF100 MUTATED C1ORF100 WILD-TYPE
  CLUS_1                5                 68
  CLUS_2                1                 42
  CLUS_3                2                 77
  CLUS_4                1                 44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF100 MUTATED        0      1      1
  C1ORF100 WILD-TYPE     29     18     63
D130V11, multiclass
[1] "Remove cluster labels:" "C1ORF100 MUTATED"      
clus
  C1ORF100 MUTATED C1ORF100 WILD-TYPE 
                 2                110 
        TCGA-A5-A0GB         TCGA-A5-A0GN         TCGA-A5-A0GQ 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AJ-A23M         TCGA-AP-A0LF         TCGA-AP-A0LM 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AP-A1DQ         TCGA-AX-A064         TCGA-AX-A06H 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AX-A06L         TCGA-AX-A1C8         TCGA-AX-A1CP 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AX-A2H5         TCGA-AX-A2HF         TCGA-B5-A0JR 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A0JT         TCGA-B5-A0K8         TCGA-B5-A11G 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11H         TCGA-B5-A11J         TCGA-B5-A11M 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11N         TCGA-B5-A11O         TCGA-B5-A11Q 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11S         TCGA-B5-A11U         TCGA-B5-A11W 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11Z         TCGA-B5-A121         TCGA-B5-A1MU 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A1MY         TCGA-BG-A0VV         TCGA-BG-A0VW 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BG-A0VX         TCGA-BG-A0YV         TCGA-BG-A186 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BG-A187         TCGA-BG-A18A         TCGA-BG-A18B 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BG-A18C         TCGA-BG-A2AE         TCGA-BK-A0CA 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BK-A0CC         TCGA-BK-A139         TCGA-BK-A13C 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BS-A0T9         TCGA-BS-A0UA         TCGA-BS-A0V6 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BS-A0V7         TCGA-BS-A0V8         TCGA-D1-A0ZN 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A0ZO         TCGA-D1-A0ZQ         TCGA-D1-A0ZS 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A102         TCGA-D1-A15V         TCGA-D1-A15W 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A15X         TCGA-D1-A160         TCGA-D1-A161 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A163         TCGA-D1-A165         TCGA-D1-A167 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A168         TCGA-D1-A169         TCGA-D1-A16B 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16D         TCGA-D1-A16E         TCGA-D1-A16F 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16G         TCGA-D1-A16I         TCGA-D1-A16J 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16N         TCGA-D1-A16O         TCGA-D1-A16Q 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16R         TCGA-D1-A16S         TCGA-D1-A16X 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16Y         TCGA-D1-A174         TCGA-D1-A176 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A177         TCGA-D1-A17A         TCGA-D1-A17B 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17C         TCGA-D1-A17D         TCGA-D1-A17F 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17H         TCGA-D1-A17K         TCGA-D1-A17L 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17M         TCGA-D1-A17N         TCGA-D1-A17Q 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17R         TCGA-D1-A17S         TCGA-D1-A17T 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17U         TCGA-D1-A1NU         TCGA-D1-A1NX 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-DI-A0WH         TCGA-DI-A1NN         TCGA-E6-A1LZ 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-EO-A1Y5         TCGA-EO-A1Y8         TCGA-EY-A1GS 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-EY-A212         TCGA-FI-A2D2         TCGA-FI-A2EW 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-FI-A2EX         TCGA-FI-A2F8 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF100 MUTATED        1      1      0
  C1ORF100 WILD-TYPE     32     47     31
D130V12, multiclass
[1] "Remove cluster labels:" "C1ORF100 MUTATED"      
clus
  C1ORF100 MUTATED C1ORF100 WILD-TYPE 
                 2                110 
        TCGA-A5-A0GB         TCGA-A5-A0GN         TCGA-A5-A0GQ 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AJ-A23M         TCGA-AP-A0LF         TCGA-AP-A0LM 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AP-A1DQ         TCGA-AX-A064         TCGA-AX-A06H 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AX-A06L         TCGA-AX-A1C8         TCGA-AX-A1CP 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-AX-A2H5         TCGA-AX-A2HF         TCGA-B5-A0JR 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A0JT         TCGA-B5-A0K8         TCGA-B5-A11G 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11H         TCGA-B5-A11J         TCGA-B5-A11M 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11N         TCGA-B5-A11O         TCGA-B5-A11Q 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11S         TCGA-B5-A11U         TCGA-B5-A11W 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A11Z         TCGA-B5-A121         TCGA-B5-A1MU 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-B5-A1MY         TCGA-BG-A0VV         TCGA-BG-A0VW 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BG-A0VX         TCGA-BG-A0YV         TCGA-BG-A186 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BG-A187         TCGA-BG-A18A         TCGA-BG-A18B 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BG-A18C         TCGA-BG-A2AE         TCGA-BK-A0CA 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BK-A0CC         TCGA-BK-A139         TCGA-BK-A13C 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BS-A0T9         TCGA-BS-A0UA         TCGA-BS-A0V6 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-BS-A0V7         TCGA-BS-A0V8         TCGA-D1-A0ZN 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A0ZO         TCGA-D1-A0ZQ         TCGA-D1-A0ZS 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A102         TCGA-D1-A15V         TCGA-D1-A15W 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A15X         TCGA-D1-A160         TCGA-D1-A161 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A163         TCGA-D1-A165         TCGA-D1-A167 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A168         TCGA-D1-A169         TCGA-D1-A16B 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16D         TCGA-D1-A16E         TCGA-D1-A16F 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16G         TCGA-D1-A16I         TCGA-D1-A16J 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16N         TCGA-D1-A16O         TCGA-D1-A16Q 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16R         TCGA-D1-A16S         TCGA-D1-A16X 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A16Y         TCGA-D1-A174         TCGA-D1-A176 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A177         TCGA-D1-A17A         TCGA-D1-A17B 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17C         TCGA-D1-A17D         TCGA-D1-A17F 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17H         TCGA-D1-A17K         TCGA-D1-A17L 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17M         TCGA-D1-A17N         TCGA-D1-A17Q 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17R         TCGA-D1-A17S         TCGA-D1-A17T 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-D1-A17U         TCGA-D1-A1NU         TCGA-D1-A1NX 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-DI-A0WH         TCGA-DI-A1NN         TCGA-E6-A1LZ 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-EO-A1Y5         TCGA-EO-A1Y8         TCGA-EY-A1GS 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-EY-A212         TCGA-FI-A2D2         TCGA-FI-A2EW 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 
        TCGA-FI-A2EX         TCGA-FI-A2F8 
"C1ORF100 WILD-TYPE" "C1ORF100 WILD-TYPE" 

Clustering(131) Variable = CCDC160 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC160 MUTATED        1      2      0      0
  CCDC160 WILD-TYPE     11     16     11     10
D131V1, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                16
  CLUS_3               0                11
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      0      1      0
  CCDC160 WILD-TYPE     10     10      7      6     15
D131V2, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               2                10
  CLUS_2               0                10
  CLUS_3               0                 7
  CLUS_4               1                 6
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     10      0      0      1
  CCDC160 WILD-TYPE     56    142     11      5     17
D131V3, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              10               142
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               1                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
  CCDC160 MUTATED        1      1      2
  CCDC160 WILD-TYPE     42     38     51
D131V4, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                38
  CLUS_3               2                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      3      1      1      2      1
  CCDC160 WILD-TYPE     37     33     36      9     38     23
D131V5, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               2                37
  CLUS_2               3                33
  CLUS_3               1                36
  CLUS_4               1                 9
  CLUS_5               2                38
  CLUS_6               1                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      2      3      1
  CCDC160 WILD-TYPE     61     62     37     16
D131V6, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               4                61
  CLUS_2               2                62
  CLUS_3               3                37
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      5      2
  CCDC160 WILD-TYPE     75     80     81
D131V7, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               4                75
  CLUS_2               5                80
  CLUS_3               2                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
  CCDC160 MUTATED        0      1      1      4      4      0      1
  CCDC160 WILD-TYPE     44     40     16     29     31     31     45
D131V8, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               1                40
  CLUS_3               1                16
  CLUS_4               4                29
  CLUS_5               4                31
  CLUS_6               0                31
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      4      3
  CCDC160 WILD-TYPE     66     75     89
D131V9, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                75
  CLUS_3               3                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
  CCDC160 MUTATED        6      1      3      0
  CCDC160 WILD-TYPE     67     42     76     45
D131V10, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               6                67
  CLUS_2               1                42
  CLUS_3               3                76
  CLUS_4               0                45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2
  CCDC160 WILD-TYPE     29     18     62
D131V11, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                29
  CLUS_2               1                18
  CLUS_3               2                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
  CCDC160 MUTATED        0      1      2
  CCDC160 WILD-TYPE     33     47     29
D131V12, multiclass
        clus
vv       CCDC160 MUTATED CCDC160 WILD-TYPE
  CLUS_1               0                33
  CLUS_2               1                47
  CLUS_3               2                29
[1] 3 2
[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 = NAA15 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAA15 MUTATED        2      2      0      0
  NAA15 WILD-TYPE     10     16     11     10
D132V1, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             2              16
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      1      1      0
  NAA15 WILD-TYPE     10     10      6      6     15
D132V2, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     10      0      0      2
  NAA15 WILD-TYPE     54    142     11      5     16
D132V3, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              54
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  NAA15 MUTATED        5      1      1
  NAA15 WILD-TYPE     38     38     52
D132V4, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              38
  CLUS_3             1              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
  NAA15 MUTATED        5      3      1      2      2      0
  NAA15 WILD-TYPE     34     33     36      8     38     24
D132V5, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             5              34
  CLUS_2             3              33
  CLUS_3             1              36
  CLUS_4             2               8
  CLUS_5             2              38
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      7      3      0
  NAA15 WILD-TYPE     62     57     37     17
D132V6, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             7              57
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      4      2
  NAA15 WILD-TYPE     71     81     81
D132V7, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             8              71
  CLUS_2             4              81
  CLUS_3             2              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
  NAA15 MUTATED        0      0      3      4      5      0      2
  NAA15 WILD-TYPE     44     41     14     29     30     31     44
D132V8, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             3              14
  CLUS_4             4              29
  CLUS_5             5              30
  CLUS_6             0              31
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      6      2
  NAA15 WILD-TYPE     64     73     90
D132V9, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             6              73
  CLUS_3             2              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
  NAA15 MUTATED        7      1      3      2
  NAA15 WILD-TYPE     66     42     76     43
D132V10, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             1              42
  CLUS_3             3              76
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      4
  NAA15 WILD-TYPE     29     17     60
D132V11, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             2              17
  CLUS_3             4              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
  NAA15 MUTATED        2      1      3
  NAA15 WILD-TYPE     31     47     28
D132V12, multiclass
        clus
vv       NAA15 MUTATED NAA15 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             3              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"

Clustering(133) Variable = RNF31 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF31 MUTATED        3      2      1      0
  RNF31 WILD-TYPE      9     16     10     10
D133V1, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             2              16
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF31 MUTATED        2      0      2      2      0
  RNF31 WILD-TYPE     10     10      5      5     15
D133V2, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             2               5
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF31 MUTATED        2     11      1      0      3
  RNF31 WILD-TYPE     54    141     10      5     15
D133V3, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             2              54
  CLUS_2            11             141
  CLUS_3             1              10
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF31 MUTATED        4      1      3
  RNF31 WILD-TYPE     39     38     50
D133V4, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             4              39
  CLUS_2             1              38
  CLUS_3             3              50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF31 MUTATED        4      5      0      1      2      0
  RNF31 WILD-TYPE     35     31     37      9     38     24
D133V5, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             5              31
  CLUS_3             0              37
  CLUS_4             1               9
  CLUS_5             2              38
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF31 MUTATED        4      7      1      0
  RNF31 WILD-TYPE     61     57     39     17
D133V6, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             7              57
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF31 MUTATED        9      6      2
  RNF31 WILD-TYPE     70     79     81
D133V7, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             9              70
  CLUS_2             6              79
  CLUS_3             2              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
  RNF31 MUTATED        0      2      3      4      6      1      1
  RNF31 WILD-TYPE     44     39     14     29     29     30     45
D133V8, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             2              39
  CLUS_3             3              14
  CLUS_4             4              29
  CLUS_5             6              29
  CLUS_6             1              30
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF31 MUTATED        7      8      1
  RNF31 WILD-TYPE     62     71     91
D133V9, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             8              71
  CLUS_3             1              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
  RNF31 MUTATED       10      2      2      2
  RNF31 WILD-TYPE     63     41     77     43
D133V10, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1            10              63
  CLUS_2             2              41
  CLUS_3             2              77
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF31 MUTATED        3      3      1
  RNF31 WILD-TYPE     26     16     63
D133V11, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             3              26
  CLUS_2             3              16
  CLUS_3             1              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
  RNF31 MUTATED        4      1      2
  RNF31 WILD-TYPE     29     47     29
D133V12, multiclass
        clus
vv       RNF31 MUTATED RNF31 WILD-TYPE
  CLUS_1             4              29
  CLUS_2             1              47
  CLUS_3             2              29
[1] 3 2
[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 = NFE2L3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L3 MUTATED        1      1      0      0
  NFE2L3 WILD-TYPE     11     17     11     10
D134V1, multiclass
[1] "Remove cluster labels:" "NFE2L3 MUTATED"        
clus
  NFE2L3 MUTATED NFE2L3 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H       TCGA-AP-A05J 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8       TCGA-AP-A0L9 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH       TCGA-AP-A0LJ 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV       TCGA-AX-A05S 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-BK-A0CC 
"NFE2L3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFE2L3 MUTATED        1      0      0      1      0
  NFE2L3 WILD-TYPE     11     10      7      6     15
D134V2, multiclass
[1] "Remove cluster labels:" "NFE2L3 MUTATED"        
clus
  NFE2L3 MUTATED NFE2L3 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H       TCGA-AP-A05J 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8       TCGA-AP-A0L9 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH       TCGA-AP-A0LJ 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV       TCGA-AX-A05S 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W       TCGA-AX-A05Y 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" "NFE2L3 WILD-TYPE" 
      TCGA-BK-A0CC 
"NFE2L3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFE2L3 MUTATED        3      8      0      0      1
  NFE2L3 WILD-TYPE     53    144     11      5     17
D134V3, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              3               53
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  NFE2L3 MUTATED        6      0      3
  NFE2L3 WILD-TYPE     37     39     50
D134V4, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              6               37
  CLUS_2              0               39
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFE2L3 MUTATED        5      1      1      0      1      1
  NFE2L3 WILD-TYPE     34     35     36     10     39     23
D134V5, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              5               34
  CLUS_2              1               35
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L3 MUTATED        3      4      1      1
  NFE2L3 WILD-TYPE     62     60     39     16
D134V6, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              4               60
  CLUS_3              1               39
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L3 MUTATED        8      2      2
  NFE2L3 WILD-TYPE     71     83     81
D134V7, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              8               71
  CLUS_2              2               83
  CLUS_3              2               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
  NFE2L3 MUTATED        2      0      3      4      2      0      1
  NFE2L3 WILD-TYPE     42     41     14     29     33     31     45
D134V8, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              2               42
  CLUS_2              0               41
  CLUS_3              3               14
  CLUS_4              4               29
  CLUS_5              2               33
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L3 MUTATED        5      3      3
  NFE2L3 WILD-TYPE     64     76     89
D134V9, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              5               64
  CLUS_2              3               76
  CLUS_3              3               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
  NFE2L3 MUTATED        5      0      3      3
  NFE2L3 WILD-TYPE     68     43     76     42
D134V10, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              0               43
  CLUS_3              3               76
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L3 MUTATED        3      2      2
  NFE2L3 WILD-TYPE     26     17     62
D134V11, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              3               26
  CLUS_2              2               17
  CLUS_3              2               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
  NFE2L3 MUTATED        4      1      2
  NFE2L3 WILD-TYPE     29     47     29
D134V12, multiclass
        clus
vv       NFE2L3 MUTATED NFE2L3 WILD-TYPE
  CLUS_1              4               29
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[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 = ZKSCAN1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZKSCAN1 MUTATED        0      1      0      0
  ZKSCAN1 WILD-TYPE     12     17     11     10
D135V1, multiclass
[1] "Remove cluster labels:" "ZKSCAN1 MUTATED"       
clus
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A05H        TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A0L8        TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A0LH        TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A0LV        TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AX-A05W        TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AX-A062        TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AX-A0IW        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN1 MUTATED        1      0      0      0      0
  ZKSCAN1 WILD-TYPE     11     10      7      7     15
D135V2, multiclass
[1] "Remove cluster labels:" "ZKSCAN1 MUTATED"       
clus
  ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A05H        TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A0L8        TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A0LH        TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AP-A0LV        TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AX-A05W        TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AX-A062        TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-AX-A0IW        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"ZKSCAN1 WILD-TYPE" "ZKSCAN1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZKSCAN1 MUTATED        0      7      0      0      0
  ZKSCAN1 WILD-TYPE     56    145     11      5     18
D135V3, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0                56
  CLUS_2               7               145
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               0                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
  ZKSCAN1 MUTATED        2      0      3
  ZKSCAN1 WILD-TYPE     41     39     50
D135V4, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                39
  CLUS_3               3                50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        3      0      2      1      0      1
  ZKSCAN1 WILD-TYPE     36     36     35      9     40     23
D135V5, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               3                36
  CLUS_2               0                36
  CLUS_3               2                35
  CLUS_4               1                 9
  CLUS_5               0                40
  CLUS_6               1                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      1      3      1
  ZKSCAN1 WILD-TYPE     63     63     37     16
D135V6, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               1                63
  CLUS_3               3                37
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      4      1
  ZKSCAN1 WILD-TYPE     77     81     82
D135V7, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               2                77
  CLUS_2               4                81
  CLUS_3               1                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
  ZKSCAN1 MUTATED        0      0      2      3      1      0      1
  ZKSCAN1 WILD-TYPE     44     41     15     30     34     31     45
D135V8, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               2                15
  CLUS_4               3                30
  CLUS_5               1                34
  CLUS_6               0                31
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      2
  ZKSCAN1 WILD-TYPE     66     77     90
D135V9, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                77
  CLUS_3               2                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
  ZKSCAN1 MUTATED        4      0      1      2
  ZKSCAN1 WILD-TYPE     69     43     78     43
D135V10, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               4                69
  CLUS_2               0                43
  CLUS_3               1                78
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      2
  ZKSCAN1 WILD-TYPE     28     18     62
D135V11, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               1                18
  CLUS_3               2                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
  ZKSCAN1 MUTATED        2      1      1
  ZKSCAN1 WILD-TYPE     31     47     30
D135V12, multiclass
        clus
vv       ZKSCAN1 MUTATED ZKSCAN1 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               1                47
  CLUS_3               1                30
[1] 3 2
[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 = CDKL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKL1 MUTATED        1      1      0      0
  CDKL1 WILD-TYPE     11     17     11     10
D136V1, multiclass
[1] "Remove cluster labels:" "CDKL1 MUTATED"         
clus
  CDKL1 MUTATED CDKL1 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-BK-A0CC 
"CDKL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDKL1 MUTATED        1      0      1      0      0
  CDKL1 WILD-TYPE     11     10      6      7     15
D136V2, multiclass
[1] "Remove cluster labels:" "CDKL1 MUTATED"         
clus
  CDKL1 MUTATED CDKL1 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" "CDKL1 WILD-TYPE" 
     TCGA-BK-A0CC 
"CDKL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDKL1 MUTATED        0      6      0      0      1
  CDKL1 WILD-TYPE     56    146     11      5     17
D136V3, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             6             146
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  CDKL1 MUTATED        1      2      1
  CDKL1 WILD-TYPE     42     37     52
D136V4, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              37
  CLUS_3             1              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
  CDKL1 MUTATED        3      1      2      0      0      0
  CDKL1 WILD-TYPE     36     35     35     10     40     24
D136V5, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             1              35
  CLUS_3             2              35
  CLUS_4             0              10
  CLUS_5             0              40
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKL1 MUTATED        2      2      2      0
  CDKL1 WILD-TYPE     63     62     38     17
D136V6, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             2              62
  CLUS_3             2              38
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL1 MUTATED        3      2      2
  CDKL1 WILD-TYPE     76     83     81
D136V7, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             2              83
  CLUS_3             2              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
  CDKL1 MUTATED        0      1      0      3      2      0      1
  CDKL1 WILD-TYPE     44     40     17     30     33     31     45
D136V8, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             0              17
  CLUS_4             3              30
  CLUS_5             2              33
  CLUS_6             0              31
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL1 MUTATED        1      3      2
  CDKL1 WILD-TYPE     68     76     90
D136V9, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              76
  CLUS_3             2              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
  CDKL1 MUTATED        1      2      3      0
  CDKL1 WILD-TYPE     72     41     76     45
D136V10, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             1              72
  CLUS_2             2              41
  CLUS_3             3              76
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDKL1 MUTATED        0      1      3
  CDKL1 WILD-TYPE     29     18     61
D136V11, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             3              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
  CDKL1 MUTATED        0      2      2
  CDKL1 WILD-TYPE     33     46     29
D136V12, multiclass
        clus
vv       CDKL1 MUTATED CDKL1 WILD-TYPE
  CLUS_1             0              33
  CLUS_2             2              46
  CLUS_3             2              29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(137) Variable = ERBB3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB3 MUTATED        2      0      0      0
  ERBB3 WILD-TYPE     10     18     11     10
D137V1, multiclass
[1] "Remove cluster labels:" "ERBB3 MUTATED"         
clus
  ERBB3 MUTATED ERBB3 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062      TCGA-AX-A063 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-BK-A0CC 
"ERBB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB3 MUTATED        0      0      0      2      0
  ERBB3 WILD-TYPE     12     10      7      5     15
D137V2, multiclass
[1] "Remove cluster labels:" "ERBB3 MUTATED"         
clus
  ERBB3 MUTATED ERBB3 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062      TCGA-AX-A063 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-BK-A0CC 
"ERBB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB3 MUTATED        1     13      0      0      3
  ERBB3 WILD-TYPE     55    139     11      5     15
D137V3, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            13             139
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      6
  ERBB3 WILD-TYPE     41     36     47
D137V4, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             3              36
  CLUS_3             6              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 CLUS_4 CLUS_5 CLUS_6
  ERBB3 MUTATED        2      1      3      2      4      1
  ERBB3 WILD-TYPE     37     35     34      8     36     23
D137V5, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              35
  CLUS_3             3              34
  CLUS_4             2               8
  CLUS_5             4              36
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      4      4      1
  ERBB3 WILD-TYPE     61     60     36     16
D137V6, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4              60
  CLUS_3             4              36
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      9      3
  ERBB3 WILD-TYPE     74     76     80
D137V7, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             5              74
  CLUS_2             9              76
  CLUS_3             3              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
  ERBB3 MUTATED        2      2      1      5      4      0      3
  ERBB3 WILD-TYPE     42     39     16     28     31     31     43
D137V8, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              42
  CLUS_2             2              39
  CLUS_3             1              16
  CLUS_4             5              28
  CLUS_5             4              31
  CLUS_6             0              31
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      5      7
  ERBB3 WILD-TYPE     64     74     85
D137V9, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             5              74
  CLUS_3             7              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
  ERBB3 MUTATED        7      2      5      3
  ERBB3 WILD-TYPE     66     41     74     42
D137V10, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             2              41
  CLUS_3             5              74
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      0      5
  ERBB3 WILD-TYPE     27     19     59
D137V11, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             0              19
  CLUS_3             5              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
  ERBB3 MUTATED        2      2      3
  ERBB3 WILD-TYPE     31     46     28
D137V12, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             2              46
  CLUS_3             3              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"

Clustering(138) Variable = SELP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SELP MUTATED        2      1      0      0
  SELP WILD-TYPE     10     17     11     10
D138V1, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SELP MUTATED        1      0      1      1      0
  SELP WILD-TYPE     11     10      6      6     15
D138V2, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SELP MUTATED        0      7      1      0      1
  SELP WILD-TYPE     56    145     10      5     17
D138V3, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            0             56
  CLUS_2            7            145
  CLUS_3            1             10
  CLUS_4            0              5
  CLUS_5            1             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
  SELP MUTATED        1      1      0
  SELP WILD-TYPE     42     38     53
D138V4, multiclass
[1] "Remove cluster labels:" "SELP MUTATED"          
clus
  SELP MUTATED SELP WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A0LF 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H     TCGA-AX-A06L 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AX-A0IS     TCGA-AX-A0J0     TCGA-AX-A1C7     TCGA-AX-A1C8 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JT 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F     TCGA-B5-A11G 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J     TCGA-B5-A11M 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V     TCGA-B5-A11W 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z     TCGA-B5-A121 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT     TCGA-BG-A0VV 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ     TCGA-BG-A0W1 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV     TCGA-BG-A186 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5     TCGA-BS-A0U9 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6     TCGA-BS-A0V7 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H     TCGA-D1-A17K 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N     TCGA-D1-A17Q 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-FI-A2F8 
"SELP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SELP MUTATED        3      2      0      1      1      0
  SELP WILD-TYPE     36     34     37      9     39     24
D138V5, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            3             36
  CLUS_2            2             34
  CLUS_3            0             37
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SELP MUTATED        3      3      1      0
  SELP WILD-TYPE     62     61     39     17
D138V6, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            3             62
  CLUS_2            3             61
  CLUS_3            1             39
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELP MUTATED        4      4      1
  SELP WILD-TYPE     75     81     82
D138V7, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            4             75
  CLUS_2            4             81
  CLUS_3            1             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
  SELP MUTATED        0      0      2      2      4      0      1
  SELP WILD-TYPE     44     41     15     31     31     31     45
D138V8, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            2             15
  CLUS_4            2             31
  CLUS_5            4             31
  CLUS_6            0             31
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELP MUTATED        4      3      1
  SELP WILD-TYPE     65     76     91
D138V9, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            4             65
  CLUS_2            3             76
  CLUS_3            1             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
  SELP MUTATED        5      1      2      0
  SELP WILD-TYPE     68     42     77     45
D138V10, multiclass
        clus
vv       SELP MUTATED SELP WILD-TYPE
  CLUS_1            5             68
  CLUS_2            1             42
  CLUS_3            2             77
  CLUS_4            0             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELP MUTATED        0      1      1
  SELP WILD-TYPE     29     18     63
D138V11, multiclass
[1] "Remove cluster labels:" "SELP MUTATED"          
clus
  SELP MUTATED SELP WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16Y     TCGA-D1-A174 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"SELP WILD-TYPE" "SELP WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELP MUTATED        1      1      0
  SELP WILD-TYPE     32     47     31
D138V12, multiclass
[1] "Remove cluster labels:" "SELP MUTATED"          
clus
  SELP MUTATED SELP WILD-TYPE 
             2            110 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16Y     TCGA-D1-A174 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" "SELP WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"SELP WILD-TYPE" "SELP WILD-TYPE" 

Clustering(139) Variable = PPIG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPIG MUTATED        3      2      0      0
  PPIG WILD-TYPE      9     16     11     10
D139V1, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            3              9
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      1      2      0
  PPIG WILD-TYPE     10     10      6      5     15
D139V2, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            2              5
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     16      0      0      0
  PPIG WILD-TYPE     56    136     11      5     18
D139V3, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            0             56
  CLUS_2           16            136
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            0             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
  PPIG MUTATED        3      2      4
  PPIG WILD-TYPE     40     37     49
D139V4, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             37
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  PPIG MUTATED        4      3      5      0      2      1
  PPIG WILD-TYPE     35     33     32     10     38     23
D139V5, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            4             35
  CLUS_2            3             33
  CLUS_3            5             32
  CLUS_4            0             10
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      5      4      1
  PPIG WILD-TYPE     60     59     36     16
D139V6, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            5             60
  CLUS_2            5             59
  CLUS_3            4             36
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      8      2
  PPIG WILD-TYPE     73     77     81
D139V7, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            6             73
  CLUS_2            8             77
  CLUS_3            2             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
  PPIG MUTATED        1      1      1      7      5      0      1
  PPIG WILD-TYPE     43     40     16     26     30     31     45
D139V8, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            1             43
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            7             26
  CLUS_5            5             30
  CLUS_6            0             31
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        2      9      4
  PPIG WILD-TYPE     67     70     88
D139V9, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            2             67
  CLUS_2            9             70
  CLUS_3            4             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
  PPIG MUTATED        8      1      3      3
  PPIG WILD-TYPE     65     42     76     42
D139V10, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            8             65
  CLUS_2            1             42
  CLUS_3            3             76
  CLUS_4            3             42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      3
  PPIG WILD-TYPE     27     16     61
D139V11, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            2             27
  CLUS_2            3             16
  CLUS_3            3             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
  PPIG MUTATED        2      1      5
  PPIG WILD-TYPE     31     47     26
D139V12, multiclass
        clus
vv       PPIG MUTATED PPIG WILD-TYPE
  CLUS_1            2             31
  CLUS_2            1             47
  CLUS_3            5             26
[1] 3 2
[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 = GPRASP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPRASP1 MUTATED        3      1      1      0
  GPRASP1 WILD-TYPE      9     17     10     10
D140V1, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               1                17
  CLUS_3               1                10
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPRASP1 MUTATED        1      0      2      2      0
  GPRASP1 WILD-TYPE     11     10      5      5     15
D140V2, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               1                11
  CLUS_2               0                10
  CLUS_3               2                 5
  CLUS_4               2                 5
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPRASP1 MUTATED        1     19      0      0      1
  GPRASP1 WILD-TYPE     55    133     11      5     17
D140V3, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               1                55
  CLUS_2              19               133
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               1                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
  GPRASP1 MUTATED        3      2      6
  GPRASP1 WILD-TYPE     40     37     47
D140V4, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               3                40
  CLUS_2               2                37
  CLUS_3               6                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 CLUS_4 CLUS_5 CLUS_6
  GPRASP1 MUTATED        7      4      2      1      2      1
  GPRASP1 WILD-TYPE     32     32     35      9     38     23
D140V5, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               7                32
  CLUS_2               4                32
  CLUS_3               2                35
  CLUS_4               1                 9
  CLUS_5               2                38
  CLUS_6               1                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPRASP1 MUTATED        6      6      4      1
  GPRASP1 WILD-TYPE     59     58     36     16
D140V6, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               6                59
  CLUS_2               6                58
  CLUS_3               4                36
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPRASP1 MUTATED        6      7      7
  GPRASP1 WILD-TYPE     73     78     76
D140V7, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               6                73
  CLUS_2               7                78
  CLUS_3               7                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
  GPRASP1 MUTATED        1      1      1      6      5      2      4
  GPRASP1 WILD-TYPE     43     40     16     27     30     29     42
D140V8, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               1                43
  CLUS_2               1                40
  CLUS_3               1                16
  CLUS_4               6                27
  CLUS_5               5                30
  CLUS_6               2                29
  CLUS_7               4                42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPRASP1 MUTATED        4      9      7
  GPRASP1 WILD-TYPE     65     70     85
D140V9, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               4                65
  CLUS_2               9                70
  CLUS_3               7                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
  GPRASP1 MUTATED        9      2      7      2
  GPRASP1 WILD-TYPE     64     41     72     43
D140V10, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               9                64
  CLUS_2               2                41
  CLUS_3               7                72
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPRASP1 MUTATED        1      2      4
  GPRASP1 WILD-TYPE     28     17     60
D140V11, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               2                17
  CLUS_3               4                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
  GPRASP1 MUTATED        2      3      2
  GPRASP1 WILD-TYPE     31     45     29
D140V12, multiclass
        clus
vv       GPRASP1 MUTATED GPRASP1 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               3                45
  CLUS_3               2                29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(141) Variable = REV3L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  REV3L MUTATED        2      1      0      0
  REV3L WILD-TYPE     10     17     11     10
D141V1, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  REV3L MUTATED        1      0      1      1      0
  REV3L WILD-TYPE     11     10      6      6     15
D141V2, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  REV3L MUTATED        0     19      0      0      1
  REV3L WILD-TYPE     56    133     11      5     17
D141V3, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             0              56
  CLUS_2            19             133
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  REV3L MUTATED        2      4      7
  REV3L WILD-TYPE     41     35     46
D141V4, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             2              41
  CLUS_2             4              35
  CLUS_3             7              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 CLUS_4 CLUS_5 CLUS_6
  REV3L MUTATED        5      4      3      2      2      1
  REV3L WILD-TYPE     34     32     34      8     38     23
D141V5, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             5              34
  CLUS_2             4              32
  CLUS_3             3              34
  CLUS_4             2               8
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  REV3L MUTATED        6      6      4      1
  REV3L WILD-TYPE     59     58     36     16
D141V6, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             6              59
  CLUS_2             6              58
  CLUS_3             4              36
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REV3L MUTATED        6      9      5
  REV3L WILD-TYPE     73     76     78
D141V7, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             6              73
  CLUS_2             9              76
  CLUS_3             5              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
  REV3L MUTATED        0      1      1      8      6      1      3
  REV3L WILD-TYPE     44     40     16     25     29     30     43
D141V8, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             8              25
  CLUS_5             6              29
  CLUS_6             1              30
  CLUS_7             3              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REV3L MUTATED        4      8      7
  REV3L WILD-TYPE     65     71     85
D141V9, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             4              65
  CLUS_2             8              71
  CLUS_3             7              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
  REV3L MUTATED       11      2      5      1
  REV3L WILD-TYPE     62     41     74     44
D141V10, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1            11              62
  CLUS_2             2              41
  CLUS_3             5              74
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  REV3L MUTATED        1      3      6
  REV3L WILD-TYPE     28     16     58
D141V11, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             1              28
  CLUS_2             3              16
  CLUS_3             6              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
  REV3L MUTATED        4      2      4
  REV3L WILD-TYPE     29     46     27
D141V12, multiclass
        clus
vv       REV3L MUTATED REV3L WILD-TYPE
  CLUS_1             4              29
  CLUS_2             2              46
  CLUS_3             4              27
[1] 3 2
[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 = CTNNA1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNA1 MUTATED        0      2      0      0
  CTNNA1 WILD-TYPE     12     16     11     10
D142V1, multiclass
[1] "Remove cluster labels:" "CTNNA1 MUTATED"        
clus
  CTNNA1 MUTATED CTNNA1 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-BK-A0CC 
"CTNNA1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNA1 MUTATED        2      0      0      0      0
  CTNNA1 WILD-TYPE     10     10      7      7     15
D142V2, multiclass
[1] "Remove cluster labels:" "CTNNA1 MUTATED"        
clus
  CTNNA1 MUTATED CTNNA1 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" "CTNNA1 WILD-TYPE" 
      TCGA-BK-A0CC 
"CTNNA1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNA1 MUTATED        1     11      0      0      1
  CTNNA1 WILD-TYPE     55    141     11      5     17
D142V3, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             11              141
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  CTNNA1 MUTATED        3      1      2
  CTNNA1 WILD-TYPE     40     38     51
D142V4, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              1               38
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNA1 MUTATED        4      1      1      2      1      1
  CTNNA1 WILD-TYPE     35     35     36      8     39     23
D142V5, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              1               35
  CLUS_3              1               36
  CLUS_4              2                8
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNA1 MUTATED        3      3      3      1
  CTNNA1 WILD-TYPE     62     61     37     16
D142V6, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3               61
  CLUS_3              3               37
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA1 MUTATED        5      6      2
  CTNNA1 WILD-TYPE     74     79     81
D142V7, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              6               79
  CLUS_3              2               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
  CTNNA1 MUTATED        0      1      2      4      4      0      2
  CTNNA1 WILD-TYPE     44     40     15     29     31     31     44
D142V8, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              2               15
  CLUS_4              4               29
  CLUS_5              4               31
  CLUS_6              0               31
  CLUS_7              2               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA1 MUTATED        4      2      6
  CTNNA1 WILD-TYPE     65     77     86
D142V9, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              2               77
  CLUS_3              6               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
  CTNNA1 MUTATED        5      1      4      2
  CTNNA1 WILD-TYPE     68     42     75     43
D142V10, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              4               75
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNA1 MUTATED        1      2      2
  CTNNA1 WILD-TYPE     28     17     62
D142V11, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              2               17
  CLUS_3              2               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
  CTNNA1 MUTATED        2      1      2
  CTNNA1 WILD-TYPE     31     47     29
D142V12, multiclass
        clus
vv       CTNNA1 MUTATED CTNNA1 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(143) Variable = MRPL47 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPL47 MUTATED        1      2      0      0
  MRPL47 WILD-TYPE     11     16     11     10
D143V1, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL47 MUTATED        1      1      1      0      0
  MRPL47 WILD-TYPE     11      9      6      7     15
D143V2, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              1                9
  CLUS_3              1                6
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPL47 MUTATED        1      5      0      0      0
  MRPL47 WILD-TYPE     55    147     11      5     18
D143V3, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              1               55
  CLUS_2              5              147
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  MRPL47 MUTATED        1      0      2
  MRPL47 WILD-TYPE     42     39     51
D143V4, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MRPL47 MUTATED        3      1      1      0      0      1
  MRPL47 WILD-TYPE     36     35     36     10     40     23
D143V5, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              1               35
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPL47 MUTATED        2      2      1      1
  MRPL47 WILD-TYPE     63     62     39     16
D143V6, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              2               62
  CLUS_3              1               39
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL47 MUTATED        3      2      1
  MRPL47 WILD-TYPE     76     83     82
D143V7, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              2               83
  CLUS_3              1               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
  MRPL47 MUTATED        1      0      1      3      1      0      0
  MRPL47 WILD-TYPE     43     41     16     30     34     31     46
D143V8, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              1               34
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL47 MUTATED        1      1      2
  MRPL47 WILD-TYPE     68     78     90
D143V9, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               78
  CLUS_3              2               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
  MRPL47 MUTATED        2      1      1      0
  MRPL47 WILD-TYPE     71     42     78     45
D143V10, multiclass
        clus
vv       MRPL47 MUTATED MRPL47 WILD-TYPE
  CLUS_1              2               71
  CLUS_2              1               42
  CLUS_3              1               78
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL47 MUTATED        0      1      1
  MRPL47 WILD-TYPE     29     18     63
D143V11, multiclass
[1] "Remove cluster labels:" "MRPL47 MUTATED"        
clus
  MRPL47 MUTATED MRPL47 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPL47 MUTATED        1      0      1
  MRPL47 WILD-TYPE     32     48     30
D143V12, multiclass
[1] "Remove cluster labels:" "MRPL47 MUTATED"        
clus
  MRPL47 MUTATED MRPL47 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"MRPL47 WILD-TYPE" "MRPL47 WILD-TYPE" 

Clustering(144) Variable = DEPDC1B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEPDC1B MUTATED        1      2      0      0
  DEPDC1B WILD-TYPE     11     16     11     10
D144V1, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                16
  CLUS_3               0                11
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEPDC1B MUTATED        2      0      0      1      0
  DEPDC1B WILD-TYPE     10     10      7      6     15
D144V2, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               2                10
  CLUS_2               0                10
  CLUS_3               0                 7
  CLUS_4               1                 6
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DEPDC1B MUTATED        0     11      0      0      0
  DEPDC1B WILD-TYPE     56    141     11      5     18
D144V3, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               0                56
  CLUS_2              11               141
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               0                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
  DEPDC1B MUTATED        3      1      2
  DEPDC1B WILD-TYPE     40     38     51
D144V4, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               3                40
  CLUS_2               1                38
  CLUS_3               2                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DEPDC1B MUTATED        3      2      0      3      1      2
  DEPDC1B WILD-TYPE     36     34     37      7     39     22
D144V5, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               3                36
  CLUS_2               2                34
  CLUS_3               0                37
  CLUS_4               3                 7
  CLUS_5               1                39
  CLUS_6               2                22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DEPDC1B MUTATED        4      2      3      2
  DEPDC1B WILD-TYPE     61     62     37     15
D144V6, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               4                61
  CLUS_2               2                62
  CLUS_3               3                37
  CLUS_4               2                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEPDC1B MUTATED        6      3      2
  DEPDC1B WILD-TYPE     73     82     81
D144V7, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               6                73
  CLUS_2               3                82
  CLUS_3               2                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
  DEPDC1B MUTATED        1      0      2      3      3      0      2
  DEPDC1B WILD-TYPE     43     41     15     30     32     31     44
D144V8, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               1                43
  CLUS_2               0                41
  CLUS_3               2                15
  CLUS_4               3                30
  CLUS_5               3                32
  CLUS_6               0                31
  CLUS_7               2                44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEPDC1B MUTATED        3      4      3
  DEPDC1B WILD-TYPE     66     75     89
D144V9, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               3                66
  CLUS_2               4                75
  CLUS_3               3                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
  DEPDC1B MUTATED        6      0      2      2
  DEPDC1B WILD-TYPE     67     43     77     43
D144V10, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               6                67
  CLUS_2               0                43
  CLUS_3               2                77
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  DEPDC1B MUTATED        2      2      1
  DEPDC1B WILD-TYPE     27     17     63
D144V11, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               2                27
  CLUS_2               2                17
  CLUS_3               1                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
  DEPDC1B MUTATED        3      1      1
  DEPDC1B WILD-TYPE     30     47     30
D144V12, multiclass
        clus
vv       DEPDC1B MUTATED DEPDC1B WILD-TYPE
  CLUS_1               3                30
  CLUS_2               1                47
  CLUS_3               1                30
[1] 3 2
[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 = CASP8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        2      1      0      0
  CASP8 WILD-TYPE     10     17     11     10
D145V1, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      2      0      0
  CASP8 WILD-TYPE     11     10      5      7     15
D145V2, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             2               5
  CLUS_4             0               7
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1     14      0      0      2
  CASP8 WILD-TYPE     55    138     11      5     16
D145V3, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            14             138
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  CASP8 MUTATED        2      1      6
  CASP8 WILD-TYPE     41     38     47
D145V4, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             6              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 CLUS_4 CLUS_5 CLUS_6
  CASP8 MUTATED        3      6      2      2      1      1
  CASP8 WILD-TYPE     36     30     35      8     39     23
D145V5, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             6              30
  CLUS_3             2              35
  CLUS_4             2               8
  CLUS_5             1              39
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      5      3      1
  CASP8 WILD-TYPE     59     59     37     16
D145V6, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             6              59
  CLUS_2             5              59
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      6      4
  CASP8 WILD-TYPE     72     79     79
D145V7, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             7              72
  CLUS_2             6              79
  CLUS_3             4              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
  CASP8 MUTATED        0      1      3      3      7      1      2
  CASP8 WILD-TYPE     44     40     14     30     28     30     44
D145V8, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             3              14
  CLUS_4             3              30
  CLUS_5             7              28
  CLUS_6             1              30
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        7      3      6
  CASP8 WILD-TYPE     62     76     86
D145V9, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             7              62
  CLUS_2             3              76
  CLUS_3             6              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
  CASP8 MUTATED        7      2      5      2
  CASP8 WILD-TYPE     66     41     74     43
D145V10, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             2              41
  CLUS_3             5              74
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     27     18     60
D145V11, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             1              18
  CLUS_3             4              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
  CASP8 MUTATED        3      2      2
  CASP8 WILD-TYPE     30     46     29
D145V12, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3              30
  CLUS_2             2              46
  CLUS_3             2              29
[1] 3 2
[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 = CACNB4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNB4 MUTATED        1      0      0      0
  CACNB4 WILD-TYPE     11     18     11     10
D146V1, multiclass
[1] "Remove cluster labels:" "CACNB4 MUTATED"        
clus
  CACNB4 MUTATED CACNB4 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A062 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNB4 MUTATED        0      0      0      1      0
  CACNB4 WILD-TYPE     12     10      7      6     15
D146V2, multiclass
[1] "Remove cluster labels:" "CACNB4 MUTATED"        
clus
  CACNB4 MUTATED CACNB4 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A062 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"CACNB4 WILD-TYPE" "CACNB4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNB4 MUTATED        0      7      0      1      2
  CACNB4 WILD-TYPE     56    145     11      4     16
D146V3, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              7              145
  CLUS_3              0               11
  CLUS_4              1                4
  CLUS_5              2               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
  CACNB4 MUTATED        1      2      4
  CACNB4 WILD-TYPE     42     37     49
D146V4, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              2               37
  CLUS_3              4               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 CLUS_4 CLUS_5 CLUS_6
  CACNB4 MUTATED        1      3      2      1      1      1
  CACNB4 WILD-TYPE     38     33     35      9     39     23
D146V5, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              3               33
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNB4 MUTATED        3      3      2      1
  CACNB4 WILD-TYPE     62     61     38     16
D146V6, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3               61
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNB4 MUTATED        5      3      2
  CACNB4 WILD-TYPE     74     82     81
D146V7, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              3               82
  CLUS_3              2               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
  CACNB4 MUTATED        1      0      0      4      4      1      0
  CACNB4 WILD-TYPE     43     41     17     29     31     30     46
D146V8, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              4               29
  CLUS_5              4               31
  CLUS_6              1               30
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNB4 MUTATED        1      6      3
  CACNB4 WILD-TYPE     68     73     89
D146V9, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              6               73
  CLUS_3              3               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
  CACNB4 MUTATED        5      0      3      2
  CACNB4 WILD-TYPE     68     43     76     43
D146V10, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              0               43
  CLUS_3              3               76
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNB4 MUTATED        1      1      1
  CACNB4 WILD-TYPE     28     18     63
D146V11, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              1               18
  CLUS_3              1               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
  CACNB4 MUTATED        1      0      2
  CACNB4 WILD-TYPE     32     48     29
D146V12, multiclass
        clus
vv       CACNB4 MUTATED CACNB4 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              0               48
  CLUS_3              2               29
[1] 3 2
[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 = BHLHB9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BHLHB9 MUTATED        1      0      0      0
  BHLHB9 WILD-TYPE     11     18     11     10
D147V1, multiclass
[1] "Remove cluster labels:" "BHLHB9 MUTATED"        
clus
  BHLHB9 MUTATED BHLHB9 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BHLHB9 MUTATED        0      0      0      1      0
  BHLHB9 WILD-TYPE     12     10      7      6     15
D147V2, multiclass
[1] "Remove cluster labels:" "BHLHB9 MUTATED"        
clus
  BHLHB9 MUTATED BHLHB9 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BHLHB9 MUTATED        0      7      0      0      1
  BHLHB9 WILD-TYPE     56    145     11      5     17
D147V3, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              7              145
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  BHLHB9 MUTATED        1      1      2
  BHLHB9 WILD-TYPE     42     38     51
D147V4, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BHLHB9 MUTATED        1      2      1      0      2      1
  BHLHB9 WILD-TYPE     38     34     36     10     38     23
D147V5, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              2               34
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              2               38
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BHLHB9 MUTATED        3      3      0      1
  BHLHB9 WILD-TYPE     62     61     40     16
D147V6, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3               61
  CLUS_3              0               40
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BHLHB9 MUTATED        4      4      0
  BHLHB9 WILD-TYPE     75     81     83
D147V7, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              4               75
  CLUS_2              4               81
  CLUS_3              0               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
  BHLHB9 MUTATED        1      0      1      3      3      0      0
  BHLHB9 WILD-TYPE     43     41     16     30     32     31     46
D147V8, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              3               32
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BHLHB9 MUTATED        3      4      1
  BHLHB9 WILD-TYPE     66     75     91
D147V9, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              4               75
  CLUS_3              1               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
  BHLHB9 MUTATED        5      0      1      2
  BHLHB9 WILD-TYPE     68     43     78     43
D147V10, multiclass
        clus
vv       BHLHB9 MUTATED BHLHB9 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              0               43
  CLUS_3              1               78
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BHLHB9 MUTATED        1      1      0
  BHLHB9 WILD-TYPE     28     18     64
D147V11, multiclass
[1] "Remove cluster labels:" "BHLHB9 MUTATED"        
clus
  BHLHB9 MUTATED BHLHB9 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A174 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  BHLHB9 MUTATED        2      0      0
  BHLHB9 WILD-TYPE     31     48     31
D147V12, multiclass
[1] "Remove cluster labels:" "BHLHB9 MUTATED"        
clus
  BHLHB9 MUTATED BHLHB9 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A174 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"BHLHB9 WILD-TYPE" "BHLHB9 WILD-TYPE" 

Clustering(148) Variable = C22ORF25 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C22ORF25 MUTATED        0      0      0      0
  C22ORF25 WILD-TYPE     12     18     11     10
D148V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C22ORF25 MUTATED        0      0      0      0      0
  C22ORF25 WILD-TYPE     12     10      7      7     15
D148V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C22ORF25 MUTATED        0      6      0      0      0
  C22ORF25 WILD-TYPE     56    146     11      5     18
D148V3, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                0                 56
  CLUS_2                6                146
  CLUS_3                0                 11
  CLUS_4                0                  5
  CLUS_5                0                 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
  C22ORF25 MUTATED        1      0      0
  C22ORF25 WILD-TYPE     42     39     53
D148V4, multiclass
[1] "Remove cluster labels:" "C22ORF25 MUTATED"      
clus
  C22ORF25 MUTATED C22ORF25 WILD-TYPE 
                 1                134 
        TCGA-A5-A0GQ         TCGA-A5-A0VO         TCGA-AJ-A23M 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AP-A0LF         TCGA-AP-A0LM         TCGA-AP-A1DQ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A06H         TCGA-AX-A06L         TCGA-AX-A0IS 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A0J0         TCGA-AX-A1C7         TCGA-AX-A1C8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A1CP         TCGA-AX-A2H5         TCGA-AX-A2HF 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A0JT         TCGA-B5-A0K8         TCGA-B5-A11E 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11F         TCGA-B5-A11G         TCGA-B5-A11H 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11I         TCGA-B5-A11J         TCGA-B5-A11M 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11N         TCGA-B5-A11O         TCGA-B5-A11Q 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11R         TCGA-B5-A11S         TCGA-B5-A11U 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11V         TCGA-B5-A11W         TCGA-B5-A11X 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11Y         TCGA-B5-A11Z         TCGA-B5-A121 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A1MU         TCGA-B5-A1MY         TCGA-BG-A0VT 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A0VV         TCGA-BG-A0VW         TCGA-BG-A0VX 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A0VZ         TCGA-BG-A0W1         TCGA-BG-A0W2 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A0YU         TCGA-BG-A0YV         TCGA-BG-A186 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A187         TCGA-BG-A18A         TCGA-BG-A18B 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A18C         TCGA-BG-A2AE         TCGA-BK-A0CA 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BK-A0CC         TCGA-BK-A139         TCGA-BK-A13C 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BS-A0T9         TCGA-BS-A0U5         TCGA-BS-A0U9 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BS-A0UA         TCGA-BS-A0UL         TCGA-BS-A0V6 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BS-A0V7         TCGA-BS-A0V8         TCGA-BS-A0WQ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZN         TCGA-D1-A0ZO         TCGA-D1-A0ZP 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZQ         TCGA-D1-A0ZR         TCGA-D1-A0ZS 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZU         TCGA-D1-A0ZV         TCGA-D1-A0ZZ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A101         TCGA-D1-A102         TCGA-D1-A103 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A15V         TCGA-D1-A15W         TCGA-D1-A15X 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A15Z         TCGA-D1-A160         TCGA-D1-A161 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A163         TCGA-D1-A165         TCGA-D1-A167 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A168         TCGA-D1-A169         TCGA-D1-A16B 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16D         TCGA-D1-A16E         TCGA-D1-A16F 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16G         TCGA-D1-A16I         TCGA-D1-A16J 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16N         TCGA-D1-A16O         TCGA-D1-A16Q 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16R         TCGA-D1-A16S         TCGA-D1-A16X 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16Y         TCGA-D1-A174         TCGA-D1-A176 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A177         TCGA-D1-A17A         TCGA-D1-A17B 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17C         TCGA-D1-A17D         TCGA-D1-A17F 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17H         TCGA-D1-A17K         TCGA-D1-A17L 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17M         TCGA-D1-A17N         TCGA-D1-A17Q 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17R         TCGA-D1-A17S         TCGA-D1-A17T 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17U         TCGA-D1-A1NU         TCGA-D1-A1NX 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-DI-A0WH         TCGA-DI-A1NN         TCGA-E6-A1LZ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-EO-A1Y5         TCGA-EO-A1Y8         TCGA-EY-A1GS 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-EY-A212         TCGA-FI-A2D2         TCGA-FI-A2EW 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-FI-A2EX         TCGA-FI-A2F8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C22ORF25 MUTATED        1      1      1      0      1      1
  C22ORF25 WILD-TYPE     38     35     36     10     39     23
D148V5, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 35
  CLUS_3                1                 36
  CLUS_4                0                 10
  CLUS_5                1                 39
  CLUS_6                1                 23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C22ORF25 MUTATED        1      2      1      1
  C22ORF25 WILD-TYPE     64     62     39     16
D148V6, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                1                 64
  CLUS_2                2                 62
  CLUS_3                1                 39
  CLUS_4                1                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C22ORF25 MUTATED        1      5      0
  C22ORF25 WILD-TYPE     78     80     83
D148V7, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                1                 78
  CLUS_2                5                 80
  CLUS_3                0                 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
  C22ORF25 MUTATED        0      1      1      3      1      0      0
  C22ORF25 WILD-TYPE     44     40     16     30     34     31     46
D148V8, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                0                 44
  CLUS_2                1                 40
  CLUS_3                1                 16
  CLUS_4                3                 30
  CLUS_5                1                 34
  CLUS_6                0                 31
  CLUS_7                0                 46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C22ORF25 MUTATED        2      4      0
  C22ORF25 WILD-TYPE     67     75     92
D148V9, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                4                 75
  CLUS_3                0                 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
  C22ORF25 MUTATED        3      1      1      1
  C22ORF25 WILD-TYPE     70     42     78     44
D148V10, multiclass
        clus
vv       C22ORF25 MUTATED C22ORF25 WILD-TYPE
  CLUS_1                3                 70
  CLUS_2                1                 42
  CLUS_3                1                 78
  CLUS_4                1                 44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C22ORF25 MUTATED        0      1      0
  C22ORF25 WILD-TYPE     29     18     64
D148V11, multiclass
[1] "Remove cluster labels:" "C22ORF25 MUTATED"      
clus
  C22ORF25 MUTATED C22ORF25 WILD-TYPE 
                 1                111 
        TCGA-A5-A0GB         TCGA-A5-A0GN         TCGA-A5-A0GQ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AJ-A23M         TCGA-AP-A0LF         TCGA-AP-A0LM 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AP-A1DQ         TCGA-AX-A064         TCGA-AX-A06H 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A06L         TCGA-AX-A1C8         TCGA-AX-A1CP 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A2H5         TCGA-AX-A2HF         TCGA-B5-A0JR 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A0JT         TCGA-B5-A0K8         TCGA-B5-A11G 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11H         TCGA-B5-A11J         TCGA-B5-A11M 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11N         TCGA-B5-A11O         TCGA-B5-A11Q 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11R         TCGA-B5-A11S         TCGA-B5-A11U 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11W         TCGA-B5-A11Z         TCGA-B5-A121 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A1MU         TCGA-B5-A1MY         TCGA-BG-A0VV 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A0VW         TCGA-BG-A0VX         TCGA-BG-A0YV 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A186         TCGA-BG-A187         TCGA-BG-A18A 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A18B         TCGA-BG-A18C         TCGA-BG-A2AE 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BK-A0CA         TCGA-BK-A0CC         TCGA-BK-A139 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BK-A13C         TCGA-BS-A0T9         TCGA-BS-A0UA 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BS-A0V6         TCGA-BS-A0V7         TCGA-BS-A0V8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZN         TCGA-D1-A0ZO         TCGA-D1-A0ZQ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZS         TCGA-D1-A102         TCGA-D1-A15V 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A15W         TCGA-D1-A15X         TCGA-D1-A160 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A161         TCGA-D1-A163         TCGA-D1-A165 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A167         TCGA-D1-A168         TCGA-D1-A169 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16B         TCGA-D1-A16D         TCGA-D1-A16E 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16F         TCGA-D1-A16G         TCGA-D1-A16I 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16J         TCGA-D1-A16N         TCGA-D1-A16O 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16Q         TCGA-D1-A16R         TCGA-D1-A16S 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16X         TCGA-D1-A16Y         TCGA-D1-A174 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A176         TCGA-D1-A177         TCGA-D1-A17A 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17B         TCGA-D1-A17C         TCGA-D1-A17D 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17F         TCGA-D1-A17H         TCGA-D1-A17K 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17L         TCGA-D1-A17M         TCGA-D1-A17N 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17Q         TCGA-D1-A17R         TCGA-D1-A17S 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17T         TCGA-D1-A17U         TCGA-D1-A1NU 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A1NX         TCGA-DI-A0WH         TCGA-DI-A1NN 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-E6-A1LZ         TCGA-EO-A1Y5         TCGA-EO-A1Y8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-EY-A1GS         TCGA-EY-A212         TCGA-FI-A2D2 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-FI-A2EW         TCGA-FI-A2EX         TCGA-FI-A2F8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C22ORF25 MUTATED        1      0      0
  C22ORF25 WILD-TYPE     32     48     31
D148V12, multiclass
[1] "Remove cluster labels:" "C22ORF25 MUTATED"      
clus
  C22ORF25 MUTATED C22ORF25 WILD-TYPE 
                 1                111 
        TCGA-A5-A0GB         TCGA-A5-A0GN         TCGA-A5-A0GQ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AJ-A23M         TCGA-AP-A0LF         TCGA-AP-A0LM 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AP-A1DQ         TCGA-AX-A064         TCGA-AX-A06H 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A06L         TCGA-AX-A1C8         TCGA-AX-A1CP 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-AX-A2H5         TCGA-AX-A2HF         TCGA-B5-A0JR 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A0JT         TCGA-B5-A0K8         TCGA-B5-A11G 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11H         TCGA-B5-A11J         TCGA-B5-A11M 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11N         TCGA-B5-A11O         TCGA-B5-A11Q 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11R         TCGA-B5-A11S         TCGA-B5-A11U 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A11W         TCGA-B5-A11Z         TCGA-B5-A121 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-B5-A1MU         TCGA-B5-A1MY         TCGA-BG-A0VV 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A0VW         TCGA-BG-A0VX         TCGA-BG-A0YV 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A186         TCGA-BG-A187         TCGA-BG-A18A 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BG-A18B         TCGA-BG-A18C         TCGA-BG-A2AE 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BK-A0CA         TCGA-BK-A0CC         TCGA-BK-A139 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BK-A13C         TCGA-BS-A0T9         TCGA-BS-A0UA 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-BS-A0V6         TCGA-BS-A0V7         TCGA-BS-A0V8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZN         TCGA-D1-A0ZO         TCGA-D1-A0ZQ 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A0ZS         TCGA-D1-A102         TCGA-D1-A15V 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A15W         TCGA-D1-A15X         TCGA-D1-A160 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A161         TCGA-D1-A163         TCGA-D1-A165 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A167         TCGA-D1-A168         TCGA-D1-A169 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16B         TCGA-D1-A16D         TCGA-D1-A16E 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16F         TCGA-D1-A16G         TCGA-D1-A16I 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16J         TCGA-D1-A16N         TCGA-D1-A16O 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16Q         TCGA-D1-A16R         TCGA-D1-A16S 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A16X         TCGA-D1-A16Y         TCGA-D1-A174 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A176         TCGA-D1-A177         TCGA-D1-A17A 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17B         TCGA-D1-A17C         TCGA-D1-A17D 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17F         TCGA-D1-A17H         TCGA-D1-A17K 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17L         TCGA-D1-A17M         TCGA-D1-A17N 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17Q         TCGA-D1-A17R         TCGA-D1-A17S 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A17T         TCGA-D1-A17U         TCGA-D1-A1NU 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-D1-A1NX         TCGA-DI-A0WH         TCGA-DI-A1NN 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-E6-A1LZ         TCGA-EO-A1Y5         TCGA-EO-A1Y8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-EY-A1GS         TCGA-EY-A212         TCGA-FI-A2D2 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 
        TCGA-FI-A2EW         TCGA-FI-A2EX         TCGA-FI-A2F8 
"C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" "C22ORF25 WILD-TYPE" 

Clustering(149) Variable = GALNT7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GALNT7 MUTATED        2      1      1      0
  GALNT7 WILD-TYPE     10     17     10     10
D149V1, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GALNT7 MUTATED        1      0      2      1      0
  GALNT7 WILD-TYPE     11     10      5      6     15
D149V2, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GALNT7 MUTATED        1      9      0      0      1
  GALNT7 WILD-TYPE     55    143     11      5     17
D149V3, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               55
  CLUS_2              9              143
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  GALNT7 MUTATED        1      0      2
  GALNT7 WILD-TYPE     42     39     51
D149V4, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GALNT7 MUTATED        1      2      2      1      2      0
  GALNT7 WILD-TYPE     38     34     35      9     38     24
D149V5, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              2               34
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              2               38
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GALNT7 MUTATED        2      4      2      0
  GALNT7 WILD-TYPE     63     60     38     17
D149V6, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              4               60
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GALNT7 MUTATED        3      6      2
  GALNT7 WILD-TYPE     76     79     81
D149V7, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              6               79
  CLUS_3              2               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
  GALNT7 MUTATED        1      1      0      4      4      1      0
  GALNT7 WILD-TYPE     43     40     17     29     31     30     46
D149V8, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              1               40
  CLUS_3              0               17
  CLUS_4              4               29
  CLUS_5              4               31
  CLUS_6              1               30
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GALNT7 MUTATED        3      5      3
  GALNT7 WILD-TYPE     66     74     89
D149V9, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              5               74
  CLUS_3              3               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
  GALNT7 MUTATED        7      2      2      0
  GALNT7 WILD-TYPE     66     41     77     45
D149V10, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              2               41
  CLUS_3              2               77
  CLUS_4              0               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GALNT7 MUTATED        1      0      2
  GALNT7 WILD-TYPE     28     19     62
D149V11, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              0               19
  CLUS_3              2               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
  GALNT7 MUTATED        1      0      2
  GALNT7 WILD-TYPE     32     48     29
D149V12, multiclass
        clus
vv       GALNT7 MUTATED GALNT7 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              0               48
  CLUS_3              2               29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(150) Variable = LGMN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LGMN MUTATED        2      1      0      0
  LGMN WILD-TYPE     10     17     11     10
D150V1, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGMN MUTATED        1      0      2      0      0
  LGMN WILD-TYPE     11     10      5      7     15
D150V2, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            0              7
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGMN MUTATED        0      6      0      0      1
  LGMN WILD-TYPE     56    146     11      5     17
D150V3, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            0             56
  CLUS_2            6            146
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  LGMN MUTATED        1      0      1
  LGMN WILD-TYPE     42     39     52
D150V4, multiclass
[1] "Remove cluster labels:" "LGMN MUTATED"          
clus
  LGMN MUTATED LGMN WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A0LF 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H     TCGA-AX-A06L 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AX-A0IS     TCGA-AX-A0J0     TCGA-AX-A1C7     TCGA-AX-A1C8 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JT 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11F     TCGA-B5-A11G     TCGA-B5-A11H 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11I     TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11U     TCGA-B5-A11V     TCGA-B5-A11W     TCGA-B5-A11X 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11Y     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VT     TCGA-BG-A0VV     TCGA-BG-A0VW 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A0VX     TCGA-BG-A0VZ     TCGA-BG-A0W1     TCGA-BG-A0W2 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A0YU     TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BS-A0T9     TCGA-BS-A0U5     TCGA-BS-A0U9     TCGA-BS-A0UA 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BS-A0UL     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BS-A0WQ     TCGA-D1-A0ZN     TCGA-D1-A0ZO     TCGA-D1-A0ZP 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS     TCGA-D1-A0ZU 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101     TCGA-D1-A102 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H     TCGA-D1-A17K 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N     TCGA-D1-A17Q 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-FI-A2F8 
"LGMN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LGMN MUTATED        1      3      0      2      0      1
  LGMN WILD-TYPE     38     33     37      8     40     23
D150V5, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            0             37
  CLUS_4            2              8
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LGMN MUTATED        3      2      1      1
  LGMN WILD-TYPE     62     62     39     16
D150V6, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            3             62
  CLUS_2            2             62
  CLUS_3            1             39
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LGMN MUTATED        3      4      0
  LGMN WILD-TYPE     76     81     83
D150V7, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            3             76
  CLUS_2            4             81
  CLUS_3            0             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
  LGMN MUTATED        0      0      1      0      5      1      0
  LGMN WILD-TYPE     44     41     16     33     30     30     46
D150V8, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            0             33
  CLUS_5            5             30
  CLUS_6            1             30
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LGMN MUTATED        2      2      2
  LGMN WILD-TYPE     67     77     90
D150V9, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            2             67
  CLUS_2            2             77
  CLUS_3            2             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
  LGMN MUTATED        4      1      0      1
  LGMN WILD-TYPE     69     42     79     44
D150V10, multiclass
        clus
vv       LGMN MUTATED LGMN WILD-TYPE
  CLUS_1            4             69
  CLUS_2            1             42
  CLUS_3            0             79
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LGMN MUTATED        0      1      0
  LGMN WILD-TYPE     29     18     64
D150V11, multiclass
[1] "Remove cluster labels:" "LGMN MUTATED"          
clus
  LGMN MUTATED LGMN WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LGMN MUTATED        1      0      0
  LGMN WILD-TYPE     32     48     31
D150V12, multiclass
[1] "Remove cluster labels:" "LGMN MUTATED"          
clus
  LGMN MUTATED LGMN WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A064 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"LGMN WILD-TYPE" "LGMN WILD-TYPE" "LGMN WILD-TYPE" 

Clustering(151) Variable = EPS8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPS8 MUTATED        2      0      0      0
  EPS8 WILD-TYPE     10     18     11     10
D151V1, multiclass
[1] "Remove cluster labels:" "EPS8 MUTATED"          
clus
  EPS8 MUTATED EPS8 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-BK-A0CC 
"EPS8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPS8 MUTATED        0      0      1      1      0
  EPS8 WILD-TYPE     12     10      6      6     15
D151V2, multiclass
[1] "Remove cluster labels:" "EPS8 MUTATED"          
clus
  EPS8 MUTATED EPS8 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" "EPS8 WILD-TYPE" 
    TCGA-BK-A0CC 
"EPS8 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EPS8 MUTATED        1      9      0      0      1
  EPS8 WILD-TYPE     55    143     11      5     17
D151V3, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            1             55
  CLUS_2            9            143
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  EPS8 MUTATED        3      0      3
  EPS8 WILD-TYPE     40     39     50
D151V4, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            0             39
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EPS8 MUTATED        4      2      1      0      2      1
  EPS8 WILD-TYPE     35     34     36     10     38     23
D151V5, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            2             34
  CLUS_3            1             36
  CLUS_4            0             10
  CLUS_5            2             38
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EPS8 MUTATED        3      4      2      1
  EPS8 WILD-TYPE     62     60     38     16
D151V6, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            4             60
  CLUS_3            2             38
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPS8 MUTATED        5      5      2
  EPS8 WILD-TYPE     74     80     81
D151V7, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            5             74
  CLUS_2            5             80
  CLUS_3            2             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
  EPS8 MUTATED        1      2      1      4      3      1      0
  EPS8 WILD-TYPE     43     39     16     29     32     30     46
D151V8, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            1             43
  CLUS_2            2             39
  CLUS_3            1             16
  CLUS_4            4             29
  CLUS_5            3             32
  CLUS_6            1             30
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPS8 MUTATED        3      6      3
  EPS8 WILD-TYPE     66     73     89
D151V9, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             73
  CLUS_3            3             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
  EPS8 MUTATED        4      3      3      2
  EPS8 WILD-TYPE     69     40     76     43
D151V10, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            3             40
  CLUS_3            3             76
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EPS8 MUTATED        2      2      2
  EPS8 WILD-TYPE     27     17     62
D151V11, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            2             27
  CLUS_2            2             17
  CLUS_3            2             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
  EPS8 MUTATED        2      1      3
  EPS8 WILD-TYPE     31     47     28
D151V12, multiclass
        clus
vv       EPS8 MUTATED EPS8 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            1             47
  CLUS_3            3             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"

Clustering(152) Variable = TGOLN2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGOLN2 MUTATED        0      1      0      0
  TGOLN2 WILD-TYPE     12     17     11     10
D152V1, multiclass
[1] "Remove cluster labels:" "TGOLN2 MUTATED"        
clus
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GM       TCGA-A5-A0GP       TCGA-A5-A0GU 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGOLN2 MUTATED        1      0      0      0      0
  TGOLN2 WILD-TYPE     11     10      7      7     15
D152V2, multiclass
[1] "Remove cluster labels:" "TGOLN2 MUTATED"        
clus
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GM       TCGA-A5-A0GP       TCGA-A5-A0GU 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053       TCGA-AP-A054 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGOLN2 MUTATED        0      3      0      0      0
  TGOLN2 WILD-TYPE     56    149     11      5     18
D152V3, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              3              149
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  TGOLN2 MUTATED        0      0      2
  TGOLN2 WILD-TYPE     43     39     51
D152V4, multiclass
[1] "Remove cluster labels:" "TGOLN2 MUTATED"        
clus
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               2              133 
      TCGA-A5-A0GQ       TCGA-A5-A0VO       TCGA-AJ-A23M       TCGA-AP-A059 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A06H 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A0IS       TCGA-AX-A1C7       TCGA-AX-A1C8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JT 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11E       TCGA-B5-A11F       TCGA-B5-A11G 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11H       TCGA-B5-A11I       TCGA-B5-A11J       TCGA-B5-A11M 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q       TCGA-B5-A11R 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11V       TCGA-B5-A11W 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11X       TCGA-B5-A11Y       TCGA-B5-A11Z       TCGA-B5-A121 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VT       TCGA-BG-A0VV 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0VZ       TCGA-BG-A0W1 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A0W2       TCGA-BG-A0YU       TCGA-BG-A0YV       TCGA-BG-A186 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0U5       TCGA-BS-A0U9 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0UL       TCGA-BS-A0V6       TCGA-BS-A0V7 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BS-A0V8       TCGA-BS-A0WQ       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A0ZP       TCGA-D1-A0ZQ       TCGA-D1-A0ZR       TCGA-D1-A0ZS 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A0ZU       TCGA-D1-A0ZV       TCGA-D1-A0ZZ       TCGA-D1-A101 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A103       TCGA-D1-A15V       TCGA-D1-A15W 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A15X       TCGA-D1-A15Z       TCGA-D1-A160       TCGA-D1-A161 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T       TCGA-D1-A17U 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH       TCGA-DI-A1NN 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8       TCGA-EY-A1GS 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW       TCGA-FI-A2EX 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-FI-A2F8 
"TGOLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGOLN2 MUTATED        0      2      1      0      0      0
  TGOLN2 WILD-TYPE     39     34     36     10     40     24
D152V5, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              2               34
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              0               40
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGOLN2 MUTATED        2      0      1      0
  TGOLN2 WILD-TYPE     63     64     39     17
D152V6, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              0               64
  CLUS_3              1               39
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGOLN2 MUTATED        2      0      1
  TGOLN2 WILD-TYPE     77     85     82
D152V7, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              0               85
  CLUS_3              1               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
  TGOLN2 MUTATED        0      0      1      1      1      0      0
  TGOLN2 WILD-TYPE     44     41     16     32     34     31     46
D152V8, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              1               32
  CLUS_5              1               34
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGOLN2 MUTATED        1      1      1
  TGOLN2 WILD-TYPE     68     78     91
D152V9, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              1               78
  CLUS_3              1               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
  TGOLN2 MUTATED        1      0      1      1
  TGOLN2 WILD-TYPE     72     43     78     44
D152V10, multiclass
        clus
vv       TGOLN2 MUTATED TGOLN2 WILD-TYPE
  CLUS_1              1               72
  CLUS_2              0               43
  CLUS_3              1               78
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGOLN2 MUTATED        0      0      1
  TGOLN2 WILD-TYPE     29     19     63
D152V11, multiclass
[1] "Remove cluster labels:" "TGOLN2 MUTATED"        
clus
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16Q       TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16Y       TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17A       TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17F       TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17M       TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGOLN2 MUTATED        0      0      1
  TGOLN2 WILD-TYPE     33     48     30
D152V12, multiclass
[1] "Remove cluster labels:" "TGOLN2 MUTATED"        
clus
  TGOLN2 MUTATED TGOLN2 WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16Q       TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A16Y       TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17A       TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17F       TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17M       TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" "TGOLN2 WILD-TYPE" 

Clustering(153) Variable = TPX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TPX2 MUTATED        1      0      0      0
  TPX2 WILD-TYPE     11     18     11     10
D153V1, multiclass
[1] "Remove cluster labels:" "TPX2 MUTATED"          
clus
  TPX2 MUTATED TPX2 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPX2 MUTATED        0      0      1      0      0
  TPX2 WILD-TYPE     12     10      6      7     15
D153V2, multiclass
[1] "Remove cluster labels:" "TPX2 MUTATED"          
clus
  TPX2 MUTATED TPX2 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"TPX2 WILD-TYPE" "TPX2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TPX2 MUTATED        0      5      0      0      1
  TPX2 WILD-TYPE     56    147     11      5     17
D153V3, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            5            147
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  TPX2 MUTATED        2      1      1
  TPX2 WILD-TYPE     41     38     52
D153V4, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            1             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
  TPX2 MUTATED        3      2      0      0      1      0
  TPX2 WILD-TYPE     36     34     37     10     39     24
D153V5, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            3             36
  CLUS_2            2             34
  CLUS_3            0             37
  CLUS_4            0             10
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TPX2 MUTATED        2      4      0      0
  TPX2 WILD-TYPE     63     60     40     17
D153V6, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4             60
  CLUS_3            0             40
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPX2 MUTATED        4      2      0
  TPX2 WILD-TYPE     75     83     83
D153V7, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            2             83
  CLUS_3            0             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
  TPX2 MUTATED        1      0      1      2      2      0      0
  TPX2 WILD-TYPE     43     41     16     31     33     31     46
D153V8, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            1             43
  CLUS_2            0             41
  CLUS_3            1             16
  CLUS_4            2             31
  CLUS_5            2             33
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPX2 MUTATED        1      5      0
  TPX2 WILD-TYPE     68     74     92
D153V9, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            5             74
  CLUS_3            0             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
  TPX2 MUTATED        4      1      0      1
  TPX2 WILD-TYPE     69     42     79     44
D153V10, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            1             42
  CLUS_3            0             79
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TPX2 MUTATED        1      2      0
  TPX2 WILD-TYPE     28     17     64
D153V11, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            1             28
  CLUS_2            2             17
  CLUS_3            0             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
  TPX2 MUTATED        2      0      1
  TPX2 WILD-TYPE     31     48     30
D153V12, multiclass
        clus
vv       TPX2 MUTATED TPX2 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            0             48
  CLUS_3            1             30
[1] 3 2
[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 = C14ORF118 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C14ORF118 MUTATED        2      1      1      0
  C14ORF118 WILD-TYPE     10     17     10     10
D154V1, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  10
  CLUS_2                 1                  17
  CLUS_3                 1                  10
  CLUS_4                 0                  10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      0      2      1      0
  C14ORF118 WILD-TYPE     11     10      5      6     15
D154V2, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 1                  11
  CLUS_2                 0                  10
  CLUS_3                 2                   5
  CLUS_4                 1                   6
  CLUS_5                 0                  15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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     15      0      0      0
  C14ORF118 WILD-TYPE     56    137     11      5     18
D154V3, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 0                  56
  CLUS_2                15                 137
  CLUS_3                 0                  11
  CLUS_4                 0                   5
  CLUS_5                 0                  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
  C14ORF118 MUTATED        2      4      3
  C14ORF118 WILD-TYPE     41     35     50
D154V4, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  41
  CLUS_2                 4                  35
  CLUS_3                 3                  50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        6      4      1      1      1      0
  C14ORF118 WILD-TYPE     33     32     36      9     39     24
D154V5, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 6                  33
  CLUS_2                 4                  32
  CLUS_3                 1                  36
  CLUS_4                 1                   9
  CLUS_5                 1                  39
  CLUS_6                 0                  24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      3      2      0
  C14ORF118 WILD-TYPE     57     61     38     17
D154V6, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 8                  57
  CLUS_2                 3                  61
  CLUS_3                 2                  38
  CLUS_4                 0                  17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      4      6
  C14ORF118 WILD-TYPE     74     81     77
D154V7, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 5                  74
  CLUS_2                 4                  81
  CLUS_3                 6                  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
  C14ORF118 MUTATED        1      0      1      4      4      3      2
  C14ORF118 WILD-TYPE     43     41     16     29     31     28     44
D154V8, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 1                  43
  CLUS_2                 0                  41
  CLUS_3                 1                  16
  CLUS_4                 4                  29
  CLUS_5                 4                  31
  CLUS_6                 3                  28
  CLUS_7                 2                  44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      7      5
  C14ORF118 WILD-TYPE     67     72     87
D154V9, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  67
  CLUS_2                 7                  72
  CLUS_3                 5                  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
  C14ORF118 MUTATED        6      1      5      2
  C14ORF118 WILD-TYPE     67     42     74     43
D154V10, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 6                  67
  CLUS_2                 1                  42
  CLUS_3                 5                  74
  CLUS_4                 2                  43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      3
  C14ORF118 WILD-TYPE     27     17     61
D154V11, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  27
  CLUS_2                 2                  17
  CLUS_3                 3                  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
  C14ORF118 MUTATED        2      3      2
  C14ORF118 WILD-TYPE     31     45     29
D154V12, multiclass
        clus
vv       C14ORF118 MUTATED C14ORF118 WILD-TYPE
  CLUS_1                 2                  31
  CLUS_2                 3                  45
  CLUS_3                 2                  29
[1] 3 2
[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 = SLC34A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC34A3 MUTATED        0      0      0      0
  SLC34A3 WILD-TYPE     12     18     11     10
D155V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC34A3 MUTATED        0      0      0      0      0
  SLC34A3 WILD-TYPE     12     10      7      7     15
D155V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC34A3 MUTATED        0      5      0      0      1
  SLC34A3 WILD-TYPE     56    147     11      5     17
D155V3, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               0                56
  CLUS_2               5               147
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               1                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
  SLC34A3 MUTATED        2      0      3
  SLC34A3 WILD-TYPE     41     39     50
D155V4, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                39
  CLUS_3               3                50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC34A3 MUTATED        3      1      1      0      0      0
  SLC34A3 WILD-TYPE     36     35     36     10     40     24
D155V5, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               3                36
  CLUS_2               1                35
  CLUS_3               1                36
  CLUS_4               0                10
  CLUS_5               0                40
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC34A3 MUTATED        2      2      1      0
  SLC34A3 WILD-TYPE     63     62     39     17
D155V6, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               2                62
  CLUS_3               1                39
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A3 MUTATED        3      1      2
  SLC34A3 WILD-TYPE     76     84     81
D155V7, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               3                76
  CLUS_2               1                84
  CLUS_3               2                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
  SLC34A3 MUTATED        0      0      1      3      1      1      0
  SLC34A3 WILD-TYPE     44     41     16     30     34     30     46
D155V8, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               1                16
  CLUS_4               3                30
  CLUS_5               1                34
  CLUS_6               1                30
  CLUS_7               0                46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A3 MUTATED        3      2      1
  SLC34A3 WILD-TYPE     66     77     91
D155V9, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               2                77
  CLUS_3               1                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
  SLC34A3 MUTATED        4      0      2      0
  SLC34A3 WILD-TYPE     69     43     77     45
D155V10, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               4                69
  CLUS_2               0                43
  CLUS_3               2                77
  CLUS_4               0                45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A3 MUTATED        1      2      2
  SLC34A3 WILD-TYPE     28     17     62
D155V11, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               2                17
  CLUS_3               2                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
  SLC34A3 MUTATED        2      0      3
  SLC34A3 WILD-TYPE     31     48     28
D155V12, multiclass
        clus
vv       SLC34A3 MUTATED SLC34A3 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               0                48
  CLUS_3               3                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"

Clustering(156) Variable = ZNF662 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF662 MUTATED        2      1      0      0
  ZNF662 WILD-TYPE     10     17     11     10
D156V1, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              1               17
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF662 MUTATED        1      0      1      1      0
  ZNF662 WILD-TYPE     11     10      6      6     15
D156V2, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF662 MUTATED        1     10      0      0      2
  ZNF662 WILD-TYPE     55    142     11      5     16
D156V3, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             10              142
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF662 MUTATED        3      0      5
  ZNF662 WILD-TYPE     40     39     48
D156V4, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               39
  CLUS_3              5               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 CLUS_4 CLUS_5 CLUS_6
  ZNF662 MUTATED        3      3      2      1      1      1
  ZNF662 WILD-TYPE     36     33     35      9     39     23
D156V5, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              3               33
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF662 MUTATED        2      6      2      1
  ZNF662 WILD-TYPE     63     58     38     16
D156V6, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6               58
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF662 MUTATED        7      5      1
  ZNF662 WILD-TYPE     72     80     82
D156V7, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              7               72
  CLUS_2              5               80
  CLUS_3              1               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
  ZNF662 MUTATED        0      0      2      6      5      0      0
  ZNF662 WILD-TYPE     44     41     15     27     30     31     46
D156V8, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              2               15
  CLUS_4              6               27
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF662 MUTATED        4      5      3
  ZNF662 WILD-TYPE     65     74     89
D156V9, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              5               74
  CLUS_3              3               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
  ZNF662 MUTATED        7      1      2      2
  ZNF662 WILD-TYPE     66     42     77     43
D156V10, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              1               42
  CLUS_3              2               77
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF662 MUTATED        1      2      2
  ZNF662 WILD-TYPE     28     17     62
D156V11, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              2               17
  CLUS_3              2               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
  ZNF662 MUTATED        2      0      3
  ZNF662 WILD-TYPE     31     48     28
D156V12, multiclass
        clus
vv       ZNF662 MUTATED ZNF662 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              0               48
  CLUS_3              3               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"

Clustering(157) Variable = ZDBF2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZDBF2 MUTATED        2      3      0      0
  ZDBF2 WILD-TYPE     10     15     11     10
D157V1, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             3              15
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZDBF2 MUTATED        3      0      1      1      0
  ZDBF2 WILD-TYPE      9     10      6      6     15
D157V2, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZDBF2 MUTATED        0     15      1      0      2
  ZDBF2 WILD-TYPE     56    137     10      5     16
D157V3, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            15             137
  CLUS_3             1              10
  CLUS_4             0               5
  CLUS_5             2              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
  ZDBF2 MUTATED        3      2      5
  ZDBF2 WILD-TYPE     40     37     48
D157V4, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              37
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  ZDBF2 MUTATED        4      6      3      1      2      1
  ZDBF2 WILD-TYPE     35     30     34      9     38     23
D157V5, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             6              30
  CLUS_3             3              34
  CLUS_4             1               9
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZDBF2 MUTATED        6      7      3      1
  ZDBF2 WILD-TYPE     59     57     37     16
D157V6, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             6              59
  CLUS_2             7              57
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZDBF2 MUTATED        9      7      2
  ZDBF2 WILD-TYPE     70     78     81
D157V7, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             9              70
  CLUS_2             7              78
  CLUS_3             2              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
  ZDBF2 MUTATED        1      0      2      7      7      0      1
  ZDBF2 WILD-TYPE     43     41     15     26     28     31     45
D157V8, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             2              15
  CLUS_4             7              26
  CLUS_5             7              28
  CLUS_6             0              31
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZDBF2 MUTATED        4      9      4
  ZDBF2 WILD-TYPE     65     70     88
D157V9, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             9              70
  CLUS_3             4              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
  ZDBF2 MUTATED       10      1      3      3
  ZDBF2 WILD-TYPE     63     42     76     42
D157V10, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1            10              63
  CLUS_2             1              42
  CLUS_3             3              76
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZDBF2 MUTATED        1      2      4
  ZDBF2 WILD-TYPE     28     17     60
D157V11, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             4              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
  ZDBF2 MUTATED        3      1      3
  ZDBF2 WILD-TYPE     30     47     28
D157V12, multiclass
        clus
vv       ZDBF2 MUTATED ZDBF2 WILD-TYPE
  CLUS_1             3              30
  CLUS_2             1              47
  CLUS_3             3              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"

Clustering(158) Variable = SFRP4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRP4 MUTATED        2      1      0      0
  SFRP4 WILD-TYPE     10     17     11     10
D158V1, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRP4 MUTATED        1      0      1      1      0
  SFRP4 WILD-TYPE     11     10      6      6     15
D158V2, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFRP4 MUTATED        0      6      0      0      2
  SFRP4 WILD-TYPE     56    146     11      5     16
D158V3, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             6             146
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  SFRP4 MUTATED        0      2      2
  SFRP4 WILD-TYPE     43     37     51
D158V4, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             2              37
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SFRP4 MUTATED        1      2      0      0      3      0
  SFRP4 WILD-TYPE     38     34     37     10     37     24
D158V5, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              34
  CLUS_3             0              37
  CLUS_4             0              10
  CLUS_5             3              37
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFRP4 MUTATED        2      4      0      0
  SFRP4 WILD-TYPE     63     60     40     17
D158V6, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4              60
  CLUS_3             0              40
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP4 MUTATED        5      2      1
  SFRP4 WILD-TYPE     74     83     82
D158V7, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             5              74
  CLUS_2             2              83
  CLUS_3             1              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
  SFRP4 MUTATED        1      0      0      2      4      1      0
  SFRP4 WILD-TYPE     43     41     17     31     31     30     46
D158V8, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             2              31
  CLUS_5             4              31
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP4 MUTATED        1      5      1
  SFRP4 WILD-TYPE     68     74     91
D158V9, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             5              74
  CLUS_3             1              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
  SFRP4 MUTATED        3      1      2      1
  SFRP4 WILD-TYPE     70     42     77     44
D158V10, multiclass
        clus
vv       SFRP4 MUTATED SFRP4 WILD-TYPE
  CLUS_1             3              70
  CLUS_2             1              42
  CLUS_3             2              77
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP4 MUTATED        1      1      0
  SFRP4 WILD-TYPE     28     18     64
D158V11, multiclass
[1] "Remove cluster labels:" "SFRP4 MUTATED"         
clus
  SFRP4 MUTATED SFRP4 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A167      TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A16D      TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A16I      TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A16Q      TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17T      TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFRP4 MUTATED        1      0      1
  SFRP4 WILD-TYPE     32     48     30
D158V12, multiclass
[1] "Remove cluster labels:" "SFRP4 MUTATED"         
clus
  SFRP4 MUTATED SFRP4 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A0JT      TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A11W      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-BS-A0UA      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A102      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A167      TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A16D      TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A16I      TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A16Q      TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-D1-A17T      TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"SFRP4 WILD-TYPE" "SFRP4 WILD-TYPE" 

Clustering(159) Variable = CCDC146 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC146 MUTATED        1      2      1      0
  CCDC146 WILD-TYPE     11     16     10     10
D159V1, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                16
  CLUS_3               1                10
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC146 MUTATED        2      0      2      0      0
  CCDC146 WILD-TYPE     10     10      5      7     15
D159V2, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               2                10
  CLUS_2               0                10
  CLUS_3               2                 5
  CLUS_4               0                 7
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC146 MUTATED        0     12      0      0      2
  CCDC146 WILD-TYPE     56    140     11      5     16
D159V3, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              12               140
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               2                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
  CCDC146 MUTATED        2      1      4
  CCDC146 WILD-TYPE     41     38     49
D159V4, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                38
  CLUS_3               4                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 CLUS_4 CLUS_5 CLUS_6
  CCDC146 MUTATED        4      4      3      1      0      0
  CCDC146 WILD-TYPE     35     32     34      9     40     24
D159V5, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               4                35
  CLUS_2               4                32
  CLUS_3               3                34
  CLUS_4               1                 9
  CLUS_5               0                40
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC146 MUTATED        4      5      3      0
  CCDC146 WILD-TYPE     61     59     37     17
D159V6, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               4                61
  CLUS_2               5                59
  CLUS_3               3                37
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC146 MUTATED        6      5      3
  CCDC146 WILD-TYPE     73     80     80
D159V7, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               6                73
  CLUS_2               5                80
  CLUS_3               3                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
  CCDC146 MUTATED        0      0      1      5      6      1      1
  CCDC146 WILD-TYPE     44     41     16     28     29     30     45
D159V8, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               1                16
  CLUS_4               5                28
  CLUS_5               6                29
  CLUS_6               1                30
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC146 MUTATED        3      7      3
  CCDC146 WILD-TYPE     66     72     89
D159V9, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               7                72
  CLUS_3               3                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
  CCDC146 MUTATED        7      1      3      2
  CCDC146 WILD-TYPE     66     42     76     43
D159V10, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               7                66
  CLUS_2               1                42
  CLUS_3               3                76
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC146 MUTATED        0      2      3
  CCDC146 WILD-TYPE     29     17     61
D159V11, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               0                29
  CLUS_2               2                17
  CLUS_3               3                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
  CCDC146 MUTATED        1      1      3
  CCDC146 WILD-TYPE     32     47     28
D159V12, multiclass
        clus
vv       CCDC146 MUTATED CCDC146 WILD-TYPE
  CLUS_1               1                32
  CLUS_2               1                47
  CLUS_3               3                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"

Clustering(160) Variable = C7ORF60 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C7ORF60 MUTATED        2      1      0      0
  C7ORF60 WILD-TYPE     10     17     11     10
D160V1, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               2                10
  CLUS_2               1                17
  CLUS_3               0                11
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      1      1      0
  C7ORF60 WILD-TYPE     11     10      6      6     15
D160V2, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                11
  CLUS_2               0                10
  CLUS_3               1                 6
  CLUS_4               1                 6
  CLUS_5               0                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     10      0      0      0
  C7ORF60 WILD-TYPE     56    142     11      5     18
D160V3, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              10               142
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               0                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
  C7ORF60 MUTATED        2      1      2
  C7ORF60 WILD-TYPE     41     38     51
D160V4, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                38
  CLUS_3               2                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        3      2      1      0      3      0
  C7ORF60 WILD-TYPE     36     34     36     10     37     24
D160V5, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               3                36
  CLUS_2               2                34
  CLUS_3               1                36
  CLUS_4               0                10
  CLUS_5               3                37
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      4      2      0
  C7ORF60 WILD-TYPE     62     60     38     17
D160V6, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               3                62
  CLUS_2               4                60
  CLUS_3               2                38
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      4      1
  C7ORF60 WILD-TYPE     74     81     82
D160V7, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               5                74
  CLUS_2               4                81
  CLUS_3               1                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
  C7ORF60 MUTATED        1      1      1      5      2      0      0
  C7ORF60 WILD-TYPE     43     40     16     28     33     31     46
D160V8, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                43
  CLUS_2               1                40
  CLUS_3               1                16
  CLUS_4               5                28
  CLUS_5               2                33
  CLUS_6               0                31
  CLUS_7               0                46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      7      1
  C7ORF60 WILD-TYPE     68     72     91
D160V9, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                68
  CLUS_2               7                72
  CLUS_3               1                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
  C7ORF60 MUTATED        4      2      1      2
  C7ORF60 WILD-TYPE     69     41     78     43
D160V10, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               4                69
  CLUS_2               2                41
  CLUS_3               1                78
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1
  C7ORF60 WILD-TYPE     28     17     63
D160V11, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               2                17
  CLUS_3               1                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
  C7ORF60 MUTATED        2      0      2
  C7ORF60 WILD-TYPE     31     48     29
D160V12, multiclass
        clus
vv       C7ORF60 MUTATED C7ORF60 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               0                48
  CLUS_3               2                29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(161) Variable = ZNF649 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF649 MUTATED        2      2      0      0
  ZNF649 WILD-TYPE     10     16     11     10
D161V1, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF649 MUTATED        2      0      1      1      0
  ZNF649 WILD-TYPE     10     10      6      6     15
D161V2, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF649 MUTATED        0     14      0      0      0
  ZNF649 WILD-TYPE     56    138     11      5     18
D161V3, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             14              138
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  ZNF649 MUTATED        2      2      3
  ZNF649 WILD-TYPE     41     37     50
D161V4, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              2               37
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF649 MUTATED        5      3      2      1      2      1
  ZNF649 WILD-TYPE     34     33     35      9     38     23
D161V5, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              5               34
  CLUS_2              3               33
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              2               38
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF649 MUTATED        5      5      3      1
  ZNF649 WILD-TYPE     60     59     37     16
D161V6, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              5               60
  CLUS_2              5               59
  CLUS_3              3               37
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF649 MUTATED        5      5      4
  ZNF649 WILD-TYPE     74     80     79
D161V7, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              5               80
  CLUS_3              4               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
  ZNF649 MUTATED        1      0      1      6      3      0      3
  ZNF649 WILD-TYPE     43     41     16     27     32     31     43
D161V8, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              6               27
  CLUS_5              3               32
  CLUS_6              0               31
  CLUS_7              3               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF649 MUTATED        1      7      5
  ZNF649 WILD-TYPE     68     72     87
D161V9, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              7               72
  CLUS_3              5               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
  ZNF649 MUTATED        5      1      4      3
  ZNF649 WILD-TYPE     68     42     75     42
D161V10, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              4               75
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF649 MUTATED        1      2      2
  ZNF649 WILD-TYPE     28     17     62
D161V11, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              2               17
  CLUS_3              2               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
  ZNF649 MUTATED        2      1      2
  ZNF649 WILD-TYPE     31     47     29
D161V12, multiclass
        clus
vv       ZNF649 MUTATED ZNF649 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[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 = RASSF9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASSF9 MUTATED        1      1      0      0
  RASSF9 WILD-TYPE     11     17     11     10
D162V1, multiclass
[1] "Remove cluster labels:" "RASSF9 MUTATED"        
clus
  RASSF9 MUTATED RASSF9 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BK-A0CC 
"RASSF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASSF9 MUTATED        1      0      1      0      0
  RASSF9 WILD-TYPE     11     10      6      7     15
D162V2, multiclass
[1] "Remove cluster labels:" "RASSF9 MUTATED"        
clus
  RASSF9 MUTATED RASSF9 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BK-A0CC 
"RASSF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RASSF9 MUTATED        0      7      0      0      1
  RASSF9 WILD-TYPE     56    145     11      5     17
D162V3, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              7              145
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  RASSF9 MUTATED        1      0      2
  RASSF9 WILD-TYPE     42     39     51
D162V4, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RASSF9 MUTATED        2      3      1      0      1      0
  RASSF9 WILD-TYPE     37     33     36     10     39     24
D162V5, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              3               33
  CLUS_3              1               36
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RASSF9 MUTATED        3      3      1      0
  RASSF9 WILD-TYPE     62     61     39     17
D162V6, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3               61
  CLUS_3              1               39
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASSF9 MUTATED        4      3      2
  RASSF9 WILD-TYPE     75     82     81
D162V7, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              4               75
  CLUS_2              3               82
  CLUS_3              2               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
  RASSF9 MUTATED        0      1      0      3      4      0      1
  RASSF9 WILD-TYPE     44     40     17     30     31     31     45
D162V8, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              0               17
  CLUS_4              3               30
  CLUS_5              4               31
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASSF9 MUTATED        1      4      3
  RASSF9 WILD-TYPE     68     75     89
D162V9, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              1               68
  CLUS_2              4               75
  CLUS_3              3               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
  RASSF9 MUTATED        2      2      3      1
  RASSF9 WILD-TYPE     71     41     76     44
D162V10, multiclass
        clus
vv       RASSF9 MUTATED RASSF9 WILD-TYPE
  CLUS_1              2               71
  CLUS_2              2               41
  CLUS_3              3               76
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASSF9 MUTATED        0      1      1
  RASSF9 WILD-TYPE     29     18     63
D162V11, multiclass
[1] "Remove cluster labels:" "RASSF9 MUTATED"        
clus
  RASSF9 MUTATED RASSF9 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RASSF9 MUTATED        0      0      2
  RASSF9 WILD-TYPE     33     48     29
D162V12, multiclass
[1] "Remove cluster labels:" "RASSF9 MUTATED"        
clus
  RASSF9 MUTATED RASSF9 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"RASSF9 WILD-TYPE" "RASSF9 WILD-TYPE" 

Clustering(163) Variable = NIPA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NIPA2 MUTATED        0      1      1      0
  NIPA2 WILD-TYPE     12     17     10     10
D163V1, multiclass
[1] "Remove cluster labels:" "NIPA2 MUTATED"         
clus
  NIPA2 MUTATED NIPA2 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GU 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-BK-A0CC 
"NIPA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPA2 MUTATED        1      0      1      0      0
  NIPA2 WILD-TYPE     11     10      6      7     15
D163V2, multiclass
[1] "Remove cluster labels:" "NIPA2 MUTATED"         
clus
  NIPA2 MUTATED NIPA2 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GU 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" "NIPA2 WILD-TYPE" 
     TCGA-BK-A0CC 
"NIPA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NIPA2 MUTATED        0      8      0      0      0
  NIPA2 WILD-TYPE     56    144     11      5     18
D163V3, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             8             144
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  NIPA2 MUTATED        2      1      1
  NIPA2 WILD-TYPE     41     38     52
D163V4, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             1              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
  NIPA2 MUTATED        3      0      1      1      1      0
  NIPA2 WILD-TYPE     36     36     36      9     39     24
D163V5, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             0              36
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      2      2      0
  NIPA2 WILD-TYPE     63     62     38     17
D163V6, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             2              62
  CLUS_3             2              38
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      3
  NIPA2 WILD-TYPE     77     82     80
D163V7, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             2              77
  CLUS_2             3              82
  CLUS_3             3              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
  NIPA2 MUTATED        0      1      2      1      1      3      0
  NIPA2 WILD-TYPE     44     40     15     32     34     28     46
D163V8, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             2              15
  CLUS_4             1              32
  CLUS_5             1              34
  CLUS_6             3              28
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      2      3
  NIPA2 WILD-TYPE     66     77     89
D163V9, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             2              77
  CLUS_3             3              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
  NIPA2 MUTATED        3      1      2      2
  NIPA2 WILD-TYPE     70     42     77     43
D163V10, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             3              70
  CLUS_2             1              42
  CLUS_3             2              77
  CLUS_4             2              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      1
  NIPA2 WILD-TYPE     28     18     63
D163V11, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             1              18
  CLUS_3             1              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
  NIPA2 MUTATED        2      1      0
  NIPA2 WILD-TYPE     31     47     31
D163V12, multiclass
        clus
vv       NIPA2 MUTATED NIPA2 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             0              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"

Clustering(164) Variable = FILIP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FILIP1 MUTATED        2      2      0      0
  FILIP1 WILD-TYPE     10     16     11     10
D164V1, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FILIP1 MUTATED        2      0      1      1      0
  FILIP1 WILD-TYPE     10     10      6      6     15
D164V2, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FILIP1 MUTATED        1     13      0      0      2
  FILIP1 WILD-TYPE     55    139     11      5     16
D164V3, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             13              139
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  FILIP1 MUTATED        2      1      5
  FILIP1 WILD-TYPE     41     38     48
D164V4, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               38
  CLUS_3              5               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 CLUS_4 CLUS_5 CLUS_6
  FILIP1 MUTATED        4      6      0      2      1      1
  FILIP1 WILD-TYPE     35     30     37      8     39     23
D164V5, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              6               30
  CLUS_3              0               37
  CLUS_4              2                8
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FILIP1 MUTATED        6      5      2      1
  FILIP1 WILD-TYPE     59     59     38     16
D164V6, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              6               59
  CLUS_2              5               59
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FILIP1 MUTATED        6      6      4
  FILIP1 WILD-TYPE     73     79     79
D164V7, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              6               73
  CLUS_2              6               79
  CLUS_3              4               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
  FILIP1 MUTATED        0      0      1      4      7      1      3
  FILIP1 WILD-TYPE     44     41     16     29     28     30     43
D164V8, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              4               29
  CLUS_5              7               28
  CLUS_6              1               30
  CLUS_7              3               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FILIP1 MUTATED        4      6      5
  FILIP1 WILD-TYPE     65     73     87
D164V9, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              6               73
  CLUS_3              5               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
  FILIP1 MUTATED        9      1      3      2
  FILIP1 WILD-TYPE     64     42     76     43
D164V10, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              9               64
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FILIP1 MUTATED        2      1      2
  FILIP1 WILD-TYPE     27     18     62
D164V11, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              2               27
  CLUS_2              1               18
  CLUS_3              2               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
  FILIP1 MUTATED        2      2      1
  FILIP1 WILD-TYPE     31     46     30
D164V12, multiclass
        clus
vv       FILIP1 MUTATED FILIP1 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              2               46
  CLUS_3              1               30
[1] 3 2
[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 = PHKA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHKA2 MUTATED        2      2      1      1
  PHKA2 WILD-TYPE     10     16     10      9
D165V1, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             2              16
  CLUS_3             1              10
  CLUS_4             1               9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKA2 MUTATED        1      1      1      2      1
  PHKA2 WILD-TYPE     11      9      6      5     14
D165V2, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             1               9
  CLUS_3             1               6
  CLUS_4             2               5
  CLUS_5             1              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKA2 MUTATED        0     13      0      0      2
  PHKA2 WILD-TYPE     56    139     11      5     16
D165V3, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            13             139
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  PHKA2 MUTATED        1      0      4
  PHKA2 WILD-TYPE     42     39     49
D165V4, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             0              39
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  PHKA2 MUTATED        1      3      2      1      3      2
  PHKA2 WILD-TYPE     38     33     35      9     37     22
D165V5, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             3              33
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             3              37
  CLUS_6             2              22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHKA2 MUTATED        2      5      3      2
  PHKA2 WILD-TYPE     63     59     37     15
D165V6, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             5              59
  CLUS_3             3              37
  CLUS_4             2              15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA2 MUTATED        5      9      2
  PHKA2 WILD-TYPE     74     76     81
D165V7, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             5              74
  CLUS_2             9              76
  CLUS_3             2              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
  PHKA2 MUTATED        1      2      0      8      4      1      0
  PHKA2 WILD-TYPE     43     39     17     25     31     30     46
D165V8, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             2              39
  CLUS_3             0              17
  CLUS_4             8              25
  CLUS_5             4              31
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA2 MUTATED        5      8      3
  PHKA2 WILD-TYPE     64     71     89
D165V9, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             8              71
  CLUS_3             3              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
  PHKA2 MUTATED       10      1      2      3
  PHKA2 WILD-TYPE     63     42     77     42
D165V10, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1            10              63
  CLUS_2             1              42
  CLUS_3             2              77
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA2 MUTATED        2      1      1
  PHKA2 WILD-TYPE     27     18     63
D165V11, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             1              18
  CLUS_3             1              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
  PHKA2 MUTATED        1      0      3
  PHKA2 WILD-TYPE     32     48     28
D165V12, multiclass
        clus
vv       PHKA2 MUTATED PHKA2 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             0              48
  CLUS_3             3              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"

Clustering(166) Variable = COBLL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COBLL1 MUTATED        2      2      0      0
  COBLL1 WILD-TYPE     10     16     11     10
D166V1, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COBLL1 MUTATED        2      0      1      1      0
  COBLL1 WILD-TYPE     10     10      6      6     15
D166V2, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COBLL1 MUTATED        1     13      0      0      1
  COBLL1 WILD-TYPE     55    139     11      5     17
D166V3, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             13              139
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  COBLL1 MUTATED        3      0      5
  COBLL1 WILD-TYPE     40     39     48
D166V4, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               39
  CLUS_3              5               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 CLUS_4 CLUS_5 CLUS_6
  COBLL1 MUTATED        4      4      2      1      2      1
  COBLL1 WILD-TYPE     35     32     35      9     38     23
D166V5, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              4               32
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              2               38
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COBLL1 MUTATED        4      6      3      1
  COBLL1 WILD-TYPE     61     58     37     16
D166V6, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              6               58
  CLUS_3              3               37
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COBLL1 MUTATED        6      7      2
  COBLL1 WILD-TYPE     73     78     81
D166V7, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              6               73
  CLUS_2              7               78
  CLUS_3              2               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
  COBLL1 MUTATED        0      1      2      6      5      0      1
  COBLL1 WILD-TYPE     44     40     15     27     30     31     45
D166V8, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              2               15
  CLUS_4              6               27
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COBLL1 MUTATED        3      7      4
  COBLL1 WILD-TYPE     66     72     88
D166V9, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              7               72
  CLUS_3              4               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
  COBLL1 MUTATED        7      2      2      3
  COBLL1 WILD-TYPE     66     41     77     42
D166V10, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              7               66
  CLUS_2              2               41
  CLUS_3              2               77
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COBLL1 MUTATED        1      2      2
  COBLL1 WILD-TYPE     28     17     62
D166V11, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              2               17
  CLUS_3              2               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
  COBLL1 MUTATED        2      1      2
  COBLL1 WILD-TYPE     31     47     29
D166V12, multiclass
        clus
vv       COBLL1 MUTATED COBLL1 WILD-TYPE
  CLUS_1              2               31
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(167) Variable = AGPAT9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGPAT9 MUTATED        1      1      0      0
  AGPAT9 WILD-TYPE     11     17     11     10
D167V1, multiclass
[1] "Remove cluster labels:" "AGPAT9 MUTATED"        
clus
  AGPAT9 MUTATED AGPAT9 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BK-A0CC 
"AGPAT9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGPAT9 MUTATED        1      0      1      0      0
  AGPAT9 WILD-TYPE     11     10      6      7     15
D167V2, multiclass
[1] "Remove cluster labels:" "AGPAT9 MUTATED"        
clus
  AGPAT9 MUTATED AGPAT9 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A056       TCGA-AP-A05A       TCGA-AP-A05D 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A05H       TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A0L8       TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A0LH       TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A0LV       TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A05W       TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BK-A0CC 
"AGPAT9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGPAT9 MUTATED        0      8      0      0      0
  AGPAT9 WILD-TYPE     56    144     11      5     18
D167V3, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  AGPAT9 MUTATED        0      0      3
  AGPAT9 WILD-TYPE     43     39     50
D167V4, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              0               39
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGPAT9 MUTATED        2      2      1      2      0      1
  AGPAT9 WILD-TYPE     37     34     36      8     40     23
D167V5, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              2               34
  CLUS_3              1               36
  CLUS_4              2                8
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGPAT9 MUTATED        3      1      3      1
  AGPAT9 WILD-TYPE     62     63     37     16
D167V6, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              1               63
  CLUS_3              3               37
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AGPAT9 MUTATED        0      6      2
  AGPAT9 WILD-TYPE     79     79     81
D167V7, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              0               79
  CLUS_2              6               79
  CLUS_3              2               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
  AGPAT9 MUTATED        0      0      0      3      2      2      1
  AGPAT9 WILD-TYPE     44     41     17     30     33     29     45
D167V8, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              3               30
  CLUS_5              2               33
  CLUS_6              2               29
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AGPAT9 MUTATED        2      3      3
  AGPAT9 WILD-TYPE     67     76     89
D167V9, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               76
  CLUS_3              3               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
  AGPAT9 MUTATED        5      1      1      1
  AGPAT9 WILD-TYPE     68     42     78     44
D167V10, multiclass
        clus
vv       AGPAT9 MUTATED AGPAT9 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              1               78
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AGPAT9 MUTATED        1      0      0
  AGPAT9 WILD-TYPE     28     19     64
D167V11, multiclass
[1] "Remove cluster labels:" "AGPAT9 MUTATED"        
clus
  AGPAT9 MUTATED AGPAT9 WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11J 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AGPAT9 MUTATED        1      0      0
  AGPAT9 WILD-TYPE     32     48     31
D167V12, multiclass
[1] "Remove cluster labels:" "AGPAT9 MUTATED"        
clus
  AGPAT9 MUTATED AGPAT9 WILD-TYPE 
               1              111 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11J 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-D1-A17T       TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-DI-A0WH       TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-EO-A1Y8       TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 
      TCGA-FI-A2EW       TCGA-FI-A2EX       TCGA-FI-A2F8 
"AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" "AGPAT9 WILD-TYPE" 

Clustering(168) Variable = NOP56 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOP56 MUTATED        0      1      0      0
  NOP56 WILD-TYPE     12     17     11     10
D168V1, multiclass
[1] "Remove cluster labels:" "NOP56 MUTATED"         
clus
  NOP56 MUTATED NOP56 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LG      TCGA-AP-A0LH 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOP56 MUTATED        1      0      0      0      0
  NOP56 WILD-TYPE     11     10      7      7     15
D168V2, multiclass
[1] "Remove cluster labels:" "NOP56 MUTATED"         
clus
  NOP56 MUTATED NOP56 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LG      TCGA-AP-A0LH 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"NOP56 WILD-TYPE" "NOP56 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NOP56 MUTATED        0      8      0      0      3
  NOP56 WILD-TYPE     56    144     11      5     15
D168V3, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             8             144
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOP56 MUTATED        2      1      4
  NOP56 WILD-TYPE     41     38     49
D168V4, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             4              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 CLUS_4 CLUS_5 CLUS_6
  NOP56 MUTATED        5      4      0      1      0      0
  NOP56 WILD-TYPE     34     32     37      9     40     24
D168V5, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             5              34
  CLUS_2             4              32
  CLUS_3             0              37
  CLUS_4             1               9
  CLUS_5             0              40
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOP56 MUTATED        6      3      1      0
  NOP56 WILD-TYPE     59     61     39     17
D168V6, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             6              59
  CLUS_2             3              61
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOP56 MUTATED        6      2      3
  NOP56 WILD-TYPE     73     83     80
D168V7, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             2              83
  CLUS_3             3              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
  NOP56 MUTATED        1      0      1      1      4      3      1
  NOP56 WILD-TYPE     43     41     16     32     31     28     45
D168V8, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             1              32
  CLUS_5             4              31
  CLUS_6             3              28
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOP56 MUTATED        4      4      3
  NOP56 WILD-TYPE     65     75     89
D168V9, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             4              75
  CLUS_3             3              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
  NOP56 MUTATED        7      0      3      1
  NOP56 WILD-TYPE     66     43     76     44
D168V10, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NOP56 MUTATED        1      2      1
  NOP56 WILD-TYPE     28     17     63
D168V11, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             1              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
  NOP56 MUTATED        2      1      1
  NOP56 WILD-TYPE     31     47     30
D168V12, multiclass
        clus
vv       NOP56 MUTATED NOP56 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             1              30
[1] 3 2
[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 = RBL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBL2 MUTATED        2      2      0      0
  RBL2 WILD-TYPE     10     16     11     10
D169V1, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      1      1      0
  RBL2 WILD-TYPE     10     10      6      6     15
D169V2, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     10      0      0      2
  RBL2 WILD-TYPE     56    142     11      5     16
D169V3, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           10            142
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  RBL2 MUTATED        1      2      2
  RBL2 WILD-TYPE     42     37     51
D169V4, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             37
  CLUS_3            2             51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        3      3      3      1      1      0
  RBL2 WILD-TYPE     36     33     34      9     39     24
D169V5, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             36
  CLUS_2            3             33
  CLUS_3            3             34
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      4      4      0
  RBL2 WILD-TYPE     62     60     36     17
D169V6, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            4             60
  CLUS_3            4             36
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      2
  RBL2 WILD-TYPE     75     79     81
D169V7, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            6             79
  CLUS_3            2             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
  RBL2 MUTATED        0      0      0      5      5      1      1
  RBL2 WILD-TYPE     44     41     17     28     30     30     45
D169V8, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            0             17
  CLUS_4            5             28
  CLUS_5            5             30
  CLUS_6            1             30
  CLUS_7            1             45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      7      2
  RBL2 WILD-TYPE     66     72     90
D169V9, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            7             72
  CLUS_3            2             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
  RBL2 MUTATED        7      1      3      1
  RBL2 WILD-TYPE     66     42     76     44
D169V10, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            7             66
  CLUS_2            1             42
  CLUS_3            3             76
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      1      3
  RBL2 WILD-TYPE     29     18     61
D169V11, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            1             18
  CLUS_3            3             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
  RBL2 MUTATED        1      2      1
  RBL2 WILD-TYPE     32     46     30
D169V12, multiclass
        clus
vv       RBL2 MUTATED RBL2 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            2             46
  CLUS_3            1             30
[1] 3 2
[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 = ABCC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCC6 MUTATED        2      1      1      0
  ABCC6 WILD-TYPE     10     17     10     10
D170V1, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCC6 MUTATED        1      0      3      0      0
  ABCC6 WILD-TYPE     11     10      4      7     15
D170V2, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             3               4
  CLUS_4             0               7
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCC6 MUTATED        0     12      0      0      0
  ABCC6 WILD-TYPE     56    140     11      5     18
D170V3, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            12             140
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  ABCC6 MUTATED        1      2      2
  ABCC6 WILD-TYPE     42     37     51
D170V4, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              37
  CLUS_3             2              51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABCC6 MUTATED        4      2      1      2      0      2
  ABCC6 WILD-TYPE     35     34     36      8     40     22
D170V5, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             2              34
  CLUS_3             1              36
  CLUS_4             2               8
  CLUS_5             0              40
  CLUS_6             2              22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCC6 MUTATED        6      3      1      1
  ABCC6 WILD-TYPE     59     61     39     16
D170V6, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             6              59
  CLUS_2             3              61
  CLUS_3             1              39
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC6 MUTATED        3      6      3
  ABCC6 WILD-TYPE     76     79     80
D170V7, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             6              79
  CLUS_3             3              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
  ABCC6 MUTATED        0      1      1      3      3      2      2
  ABCC6 WILD-TYPE     44     40     16     30     32     29     44
D170V8, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             3              30
  CLUS_5             3              32
  CLUS_6             2              29
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC6 MUTATED        1      4      6
  ABCC6 WILD-TYPE     68     75     86
D170V9, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             4              75
  CLUS_3             6              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
  ABCC6 MUTATED        5      2      3      1
  ABCC6 WILD-TYPE     68     41     76     44
D170V10, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             5              68
  CLUS_2             2              41
  CLUS_3             3              76
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC6 MUTATED        0      1      2
  ABCC6 WILD-TYPE     29     18     62
D170V11, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             2              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
  ABCC6 MUTATED        0      2      1
  ABCC6 WILD-TYPE     33     46     30
D170V12, multiclass
        clus
vv       ABCC6 MUTATED ABCC6 WILD-TYPE
  CLUS_1             0              33
  CLUS_2             2              46
  CLUS_3             1              30
[1] 3 2
[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 = CCDC104 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC104 MUTATED        1      1      0      0
  CCDC104 WILD-TYPE     11     17     11     10
D171V1, multiclass
[1] "Remove cluster labels:" "CCDC104 MUTATED"       
clus
  CCDC104 MUTATED CCDC104 WILD-TYPE 
                2                49 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A052        TCGA-AP-A053        TCGA-AP-A054 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H        TCGA-AP-A05J 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8        TCGA-AP-A0L9 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH        TCGA-AP-A0LJ 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV        TCGA-AX-A05S 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W        TCGA-AX-A05Y 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062        TCGA-AX-A063 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW        TCGA-AX-A0J1 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0        TCGA-B5-A0K1 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI        TCGA-BK-A0C9 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-BK-A0CC 
"CCDC104 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC104 MUTATED        1      0      0      1      0
  CCDC104 WILD-TYPE     11     10      7      6     15
D171V2, multiclass
[1] "Remove cluster labels:" "CCDC104 MUTATED"       
clus
  CCDC104 MUTATED CCDC104 WILD-TYPE 
                2                49 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A052        TCGA-AP-A053        TCGA-AP-A054 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H        TCGA-AP-A05J 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8        TCGA-AP-A0L9 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH        TCGA-AP-A0LJ 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV        TCGA-AX-A05S 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W        TCGA-AX-A05Y 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062        TCGA-AX-A063 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW        TCGA-AX-A0J1 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0        TCGA-B5-A0K1 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI        TCGA-BK-A0C9 
"CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" "CCDC104 WILD-TYPE" 
       TCGA-BK-A0CC 
"CCDC104 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC104 MUTATED        0      8      0      0      2
  CCDC104 WILD-TYPE     56    144     11      5     16
D171V3, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               0                56
  CLUS_2               8               144
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               2                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
  CCDC104 MUTATED        0      1      4
  CCDC104 WILD-TYPE     43     38     49
D171V4, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               0                43
  CLUS_2               1                38
  CLUS_3               4                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 CLUS_4 CLUS_5 CLUS_6
  CCDC104 MUTATED        1      4      1      2      1      0
  CCDC104 WILD-TYPE     38     32     36      8     39     24
D171V5, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               4                32
  CLUS_3               1                36
  CLUS_4               2                 8
  CLUS_5               1                39
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC104 MUTATED        4      2      3      0
  CCDC104 WILD-TYPE     61     62     37     17
D171V6, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               4                61
  CLUS_2               2                62
  CLUS_3               3                37
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC104 MUTATED        3      3      4
  CCDC104 WILD-TYPE     76     82     79
D171V7, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               3                76
  CLUS_2               3                82
  CLUS_3               4                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
  CCDC104 MUTATED        0      0      1      2      5      1      1
  CCDC104 WILD-TYPE     44     41     16     31     30     30     45
D171V8, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               1                16
  CLUS_4               2                31
  CLUS_5               5                30
  CLUS_6               1                30
  CLUS_7               1                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC104 MUTATED        2      4      3
  CCDC104 WILD-TYPE     67     75     89
D171V9, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                75
  CLUS_3               3                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
  CCDC104 MUTATED        4      0      3      2
  CCDC104 WILD-TYPE     69     43     76     43
D171V10, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               4                69
  CLUS_2               0                43
  CLUS_3               3                76
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC104 MUTATED        1      0      2
  CCDC104 WILD-TYPE     28     19     62
D171V11, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               1                28
  CLUS_2               0                19
  CLUS_3               2                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
  CCDC104 MUTATED        0      2      1
  CCDC104 WILD-TYPE     33     46     30
D171V12, multiclass
        clus
vv       CCDC104 MUTATED CCDC104 WILD-TYPE
  CLUS_1               0                33
  CLUS_2               2                46
  CLUS_3               1                30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(172) Variable = MLL2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL2 MUTATED        4      4      1      1
  MLL2 WILD-TYPE      8     14     10      9
D172V1, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4              8
  CLUS_2            4             14
  CLUS_3            1             10
  CLUS_4            1              9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      3      1
  MLL2 WILD-TYPE      8     10      5      4     14
D172V2, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4              8
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            3              4
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1     28      2      0      2
  MLL2 WILD-TYPE     55    124      9      5     16
D172V3, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            1             55
  CLUS_2           28            124
  CLUS_3            2              9
  CLUS_4            0              5
  CLUS_5            2             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
  MLL2 MUTATED        4      1     11
  MLL2 WILD-TYPE     39     38     42
D172V4, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             38
  CLUS_3           11             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
  MLL2 MUTATED        3      7      7      4      3      2
  MLL2 WILD-TYPE     36     29     30      6     37     22
D172V5, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            3             36
  CLUS_2            7             29
  CLUS_3            7             30
  CLUS_4            4              6
  CLUS_5            3             37
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      6     11      2
  MLL2 WILD-TYPE     58     58     29     15
D172V6, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            7             58
  CLUS_2            6             58
  CLUS_3           11             29
  CLUS_4            2             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10     13     10
  MLL2 WILD-TYPE     69     72     73
D172V7, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           10             69
  CLUS_2           13             72
  CLUS_3           10             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MLL2 MUTATED        1      3      5      9      7      4      4
  MLL2 WILD-TYPE     43     38     12     24     28     27     42
D172V8, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            1             43
  CLUS_2            3             38
  CLUS_3            5             12
  CLUS_4            9             24
  CLUS_5            7             28
  CLUS_6            4             27
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        9     13     10
  MLL2 WILD-TYPE     60     66     82
D172V9, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            9             60
  CLUS_2           13             66
  CLUS_3           10             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
  MLL2 MUTATED       15      3      9      5
  MLL2 WILD-TYPE     58     40     70     40
D172V10, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1           15             58
  CLUS_2            3             40
  CLUS_3            9             70
  CLUS_4            5             40
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      7
  MLL2 WILD-TYPE     26     17     57
D172V11, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            3             26
  CLUS_2            2             17
  CLUS_3            7             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
  MLL2 MUTATED        4      5      3
  MLL2 WILD-TYPE     29     43     28
D172V12, multiclass
        clus
vv       MLL2 MUTATED MLL2 WILD-TYPE
  CLUS_1            4             29
  CLUS_2            5             43
  CLUS_3            3             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"

Clustering(173) Variable = SSH2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SSH2 MUTATED        2      1      1      0
  SSH2 WILD-TYPE     10     17     10     10
D173V1, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSH2 MUTATED        1      0      2      1      0
  SSH2 WILD-TYPE     11     10      5      6     15
D173V2, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SSH2 MUTATED        0     12      0      0      0
  SSH2 WILD-TYPE     56    140     11      5     18
D173V3, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           12            140
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            0             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
  SSH2 MUTATED        2      1      1
  SSH2 WILD-TYPE     41     38     52
D173V4, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            1             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
  SSH2 MUTATED        4      2      1      2      2      0
  SSH2 WILD-TYPE     35     34     36      8     38     24
D173V5, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            4             35
  CLUS_2            2             34
  CLUS_3            1             36
  CLUS_4            2              8
  CLUS_5            2             38
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SSH2 MUTATED        4      4      3      0
  SSH2 WILD-TYPE     61     60     37     17
D173V6, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            4             61
  CLUS_2            4             60
  CLUS_3            3             37
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SSH2 MUTATED        3      5      4
  SSH2 WILD-TYPE     76     80     79
D173V7, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            3             76
  CLUS_2            5             80
  CLUS_3            4             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
  SSH2 MUTATED        0      2      2      3      2      1      2
  SSH2 WILD-TYPE     44     39     15     30     33     30     44
D173V8, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            2             39
  CLUS_3            2             15
  CLUS_4            3             30
  CLUS_5            2             33
  CLUS_6            1             30
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SSH2 MUTATED        3      4      4
  SSH2 WILD-TYPE     66     75     88
D173V9, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            4             75
  CLUS_3            4             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
  SSH2 MUTATED        5      2      3      1
  SSH2 WILD-TYPE     68     41     76     44
D173V10, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            5             68
  CLUS_2            2             41
  CLUS_3            3             76
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SSH2 MUTATED        1      1      2
  SSH2 WILD-TYPE     28     18     62
D173V11, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            1             28
  CLUS_2            1             18
  CLUS_3            2             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
  SSH2 MUTATED        2      1      1
  SSH2 WILD-TYPE     31     47     30
D173V12, multiclass
        clus
vv       SSH2 MUTATED SSH2 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            1             47
  CLUS_3            1             30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(174) Variable = ZNF709 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF709 MUTATED        2      1      0      0
  ZNF709 WILD-TYPE     10     17     11     10
D174V1, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              1               17
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF709 MUTATED        1      0      1      1      0
  ZNF709 WILD-TYPE     11     10      6      6     15
D174V2, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              1                6
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF709 MUTATED        0     10      0      0      2
  ZNF709 WILD-TYPE     56    142     11      5     16
D174V3, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              0               56
  CLUS_2             10              142
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF709 MUTATED        1      0      5
  ZNF709 WILD-TYPE     42     39     48
D174V4, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              5               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 CLUS_4 CLUS_5 CLUS_6
  ZNF709 MUTATED        2      3      1      2      1      1
  ZNF709 WILD-TYPE     37     33     36      8     39     23
D174V5, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              3               33
  CLUS_3              1               36
  CLUS_4              2                8
  CLUS_5              1               39
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF709 MUTATED        2      5      2      1
  ZNF709 WILD-TYPE     63     59     38     16
D174V6, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              5               59
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF709 MUTATED        5      6      1
  ZNF709 WILD-TYPE     74     79     82
D174V7, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              6               79
  CLUS_3              1               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
  ZNF709 MUTATED        0      0      0      6      5      0      1
  ZNF709 WILD-TYPE     44     41     17     27     30     31     45
D174V8, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              6               27
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF709 MUTATED        2      5      4
  ZNF709 WILD-TYPE     67     74     88
D174V9, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              5               74
  CLUS_3              4               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
  ZNF709 MUTATED        6      1      3      1
  ZNF709 WILD-TYPE     67     42     76     44
D174V10, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              6               67
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF709 MUTATED        0      1      2
  ZNF709 WILD-TYPE     29     18     62
D174V11, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              1               18
  CLUS_3              2               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
  ZNF709 MUTATED        0      0      3
  ZNF709 WILD-TYPE     33     48     28
D174V12, multiclass
        clus
vv       ZNF709 MUTATED ZNF709 WILD-TYPE
  CLUS_1              0               33
  CLUS_2              0               48
  CLUS_3              3               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"

Clustering(175) Variable = BRDT MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRDT MUTATED        1      1      1      0
  BRDT WILD-TYPE     11     17     10     10
D175V1, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            1             11
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRDT MUTATED        1      0      1      0      1
  BRDT WILD-TYPE     11     10      6      7     14
D175V2, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            1              6
  CLUS_4            0              7
  CLUS_5            1             14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRDT MUTATED        0     11      0      0      3
  BRDT WILD-TYPE     56    141     11      5     15
D175V3, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            0             56
  CLUS_2           11            141
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            3             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRDT MUTATED        2      1      4
  BRDT WILD-TYPE     41     38     49
D175V4, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            2             41
  CLUS_2            1             38
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  BRDT MUTATED        4      4      1      3      0      1
  BRDT WILD-TYPE     35     32     36      7     40     23
D175V5, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            4             35
  CLUS_2            4             32
  CLUS_3            1             36
  CLUS_4            3              7
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRDT MUTATED        4      5      3      1
  BRDT WILD-TYPE     61     59     37     16
D175V6, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            4             61
  CLUS_2            5             59
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRDT MUTATED        6      5      3
  BRDT WILD-TYPE     73     80     80
D175V7, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            6             73
  CLUS_2            5             80
  CLUS_3            3             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
  BRDT MUTATED        0      1      1      4      6      0      2
  BRDT WILD-TYPE     44     40     16     29     29     31     44
D175V8, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            1             16
  CLUS_4            4             29
  CLUS_5            6             29
  CLUS_6            0             31
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRDT MUTATED        3      5      5
  BRDT WILD-TYPE     66     74     87
D175V9, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            3             66
  CLUS_2            5             74
  CLUS_3            5             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
  BRDT MUTATED        7      2      3      1
  BRDT WILD-TYPE     66     41     76     44
D175V10, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            7             66
  CLUS_2            2             41
  CLUS_3            3             76
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRDT MUTATED        0      2      2
  BRDT WILD-TYPE     29     17     62
D175V11, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            0             29
  CLUS_2            2             17
  CLUS_3            2             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
  BRDT MUTATED        1      1      2
  BRDT WILD-TYPE     32     47     29
D175V12, multiclass
        clus
vv       BRDT MUTATED BRDT WILD-TYPE
  CLUS_1            1             32
  CLUS_2            1             47
  CLUS_3            2             29
[1] 3 2
[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 = SH3BGRL MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SH3BGRL MUTATED        0      0      1      0
  SH3BGRL WILD-TYPE     12     18     10     10
D176V1, multiclass
[1] "Remove cluster labels:" "SH3BGRL MUTATED"       
clus
  SH3BGRL MUTATED SH3BGRL WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GU 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053        TCGA-AP-A054 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SH3BGRL MUTATED        0      0      1      0      0
  SH3BGRL WILD-TYPE     12     10      6      7     15
D176V2, multiclass
[1] "Remove cluster labels:" "SH3BGRL MUTATED"       
clus
  SH3BGRL MUTATED SH3BGRL WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GU 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053        TCGA-AP-A054 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A056        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SH3BGRL MUTATED        0      4      0      0      2
  SH3BGRL WILD-TYPE     56    148     11      5     16
D176V3, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               0                56
  CLUS_2               4               148
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               2                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
  SH3BGRL MUTATED        0      0      1
  SH3BGRL WILD-TYPE     43     39     52
D176V4, multiclass
[1] "Remove cluster labels:" "SH3BGRL MUTATED"       
clus
  SH3BGRL MUTATED SH3BGRL WILD-TYPE 
                1               134 
       TCGA-A5-A0GQ        TCGA-A5-A0VO        TCGA-AJ-A23M        TCGA-AP-A059 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AP-A0LF        TCGA-AP-A0LM        TCGA-AP-A1DQ        TCGA-AX-A06H 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A06L        TCGA-AX-A0IS        TCGA-AX-A0J0        TCGA-AX-A1C7 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-AX-A1C8        TCGA-AX-A1CP        TCGA-AX-A2H5        TCGA-AX-A2HF 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A0JT        TCGA-B5-A0K8        TCGA-B5-A11F        TCGA-B5-A11G 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A11H        TCGA-B5-A11I        TCGA-B5-A11J        TCGA-B5-A11M 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A11N        TCGA-B5-A11O        TCGA-B5-A11Q        TCGA-B5-A11R 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A11S        TCGA-B5-A11U        TCGA-B5-A11V        TCGA-B5-A11W 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A11X        TCGA-B5-A11Y        TCGA-B5-A11Z        TCGA-B5-A121 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-B5-A1MU        TCGA-B5-A1MY        TCGA-BG-A0VT        TCGA-BG-A0VV 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BG-A0VW        TCGA-BG-A0VX        TCGA-BG-A0VZ        TCGA-BG-A0W1 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BG-A0W2        TCGA-BG-A0YU        TCGA-BG-A0YV        TCGA-BG-A186 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BG-A187        TCGA-BG-A18A        TCGA-BG-A18B        TCGA-BG-A18C 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BG-A2AE        TCGA-BK-A0CA        TCGA-BK-A0CC        TCGA-BK-A139 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BK-A13C        TCGA-BS-A0T9        TCGA-BS-A0U5        TCGA-BS-A0U9 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BS-A0UA        TCGA-BS-A0UL        TCGA-BS-A0V6        TCGA-BS-A0V7 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-BS-A0V8        TCGA-BS-A0WQ        TCGA-D1-A0ZN        TCGA-D1-A0ZO 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A0ZP        TCGA-D1-A0ZQ        TCGA-D1-A0ZR        TCGA-D1-A0ZS 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A0ZU        TCGA-D1-A0ZV        TCGA-D1-A0ZZ        TCGA-D1-A101 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A102        TCGA-D1-A103        TCGA-D1-A15V        TCGA-D1-A15W 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A15X        TCGA-D1-A15Z        TCGA-D1-A160        TCGA-D1-A161 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A163        TCGA-D1-A165        TCGA-D1-A167        TCGA-D1-A168 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A169        TCGA-D1-A16B        TCGA-D1-A16D        TCGA-D1-A16E 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A16F        TCGA-D1-A16G        TCGA-D1-A16I        TCGA-D1-A16J 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A16N        TCGA-D1-A16O        TCGA-D1-A16Q        TCGA-D1-A16R 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A16S        TCGA-D1-A16X        TCGA-D1-A16Y        TCGA-D1-A174 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A176        TCGA-D1-A177        TCGA-D1-A17A        TCGA-D1-A17B 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A17C        TCGA-D1-A17D        TCGA-D1-A17F        TCGA-D1-A17H 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A17K        TCGA-D1-A17L        TCGA-D1-A17M        TCGA-D1-A17N 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A17Q        TCGA-D1-A17R        TCGA-D1-A17S        TCGA-D1-A17T 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-D1-A17U        TCGA-D1-A1NU        TCGA-D1-A1NX        TCGA-DI-A0WH 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-DI-A1NN        TCGA-E6-A1LZ        TCGA-EO-A1Y5        TCGA-EO-A1Y8 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-EY-A1GS        TCGA-EY-A212        TCGA-FI-A2D2        TCGA-FI-A2EW 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
       TCGA-FI-A2EX        TCGA-FI-A2F8 
"SH3BGRL WILD-TYPE" "SH3BGRL WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SH3BGRL MUTATED        0      2      0      1      1      0
  SH3BGRL WILD-TYPE     39     34     37      9     39     24
D176V5, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               0                39
  CLUS_2               2                34
  CLUS_3               0                37
  CLUS_4               1                 9
  CLUS_5               1                39
  CLUS_6               0                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SH3BGRL MUTATED        1      1      2      0
  SH3BGRL WILD-TYPE     64     63     38     17
D176V6, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               1                64
  CLUS_2               1                63
  CLUS_3               2                38
  CLUS_4               0                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SH3BGRL MUTATED        2      3      1
  SH3BGRL WILD-TYPE     77     82     82
D176V7, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               2                77
  CLUS_2               3                82
  CLUS_3               1                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
  SH3BGRL MUTATED        0      1      0      0      4      1      0
  SH3BGRL WILD-TYPE     44     40     17     33     31     30     46
D176V8, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               0                44
  CLUS_2               1                40
  CLUS_3               0                17
  CLUS_4               0                33
  CLUS_5               4                31
  CLUS_6               1                30
  CLUS_7               0                46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SH3BGRL MUTATED        2      4      0
  SH3BGRL WILD-TYPE     67     75     92
D176V9, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               2                67
  CLUS_2               4                75
  CLUS_3               0                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
  SH3BGRL MUTATED        4      1      1      0
  SH3BGRL WILD-TYPE     69     42     78     45
D176V10, multiclass
        clus
vv       SH3BGRL MUTATED SH3BGRL WILD-TYPE
  CLUS_1               4                69
  CLUS_2               1                42
  CLUS_3               1                78
  CLUS_4               0                45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SH3BGRL MUTATED        0      0      0
  SH3BGRL WILD-TYPE     29     19     64
D176V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SH3BGRL MUTATED        0      0      0
  SH3BGRL WILD-TYPE     33     48     31
D176V12, multiclass

Clustering(177) Variable = MLH3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLH3 MUTATED        1      2      1      0
  MLH3 WILD-TYPE     11     16     10     10
D177V1, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            2             16
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLH3 MUTATED        2      0      2      0      0
  MLH3 WILD-TYPE     10     10      5      7     15
D177V2, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            0              7
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MLH3 MUTATED        0     16      0      0      1
  MLH3 WILD-TYPE     56    136     11      5     17
D177V3, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           16            136
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  MLH3 MUTATED        3      2      4
  MLH3 WILD-TYPE     40     37     49
D177V4, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             37
  CLUS_3            4             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 CLUS_4 CLUS_5 CLUS_6
  MLH3 MUTATED        6      4      1      1      1      2
  MLH3 WILD-TYPE     33     32     36      9     39     22
D177V5, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            6             33
  CLUS_2            4             32
  CLUS_3            1             36
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            2             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLH3 MUTATED        6      5      3      1
  MLH3 WILD-TYPE     59     59     37     16
D177V6, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            6             59
  CLUS_2            5             59
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH3 MUTATED        6      5      6
  MLH3 WILD-TYPE     73     80     77
D177V7, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            6             73
  CLUS_2            5             80
  CLUS_3            6             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
  MLH3 MUTATED        0      1      2      4      5      1      4
  MLH3 WILD-TYPE     44     40     15     29     30     30     42
D177V8, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            2             15
  CLUS_4            4             29
  CLUS_5            5             30
  CLUS_6            1             30
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH3 MUTATED        3      6      7
  MLH3 WILD-TYPE     66     73     85
D177V9, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            3             66
  CLUS_2            6             73
  CLUS_3            7             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
  MLH3 MUTATED        7      2      5      2
  MLH3 WILD-TYPE     66     41     74     43
D177V10, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            7             66
  CLUS_2            2             41
  CLUS_3            5             74
  CLUS_4            2             43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MLH3 MUTATED        1      2      4
  MLH3 WILD-TYPE     28     17     60
D177V11, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            1             28
  CLUS_2            2             17
  CLUS_3            4             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
  MLH3 MUTATED        2      3      2
  MLH3 WILD-TYPE     31     45     29
D177V12, multiclass
        clus
vv       MLH3 MUTATED MLH3 WILD-TYPE
  CLUS_1            2             31
  CLUS_2            3             45
  CLUS_3            2             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(178) Variable = CCDC150 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC150 MUTATED        0      1      0      0
  CCDC150 WILD-TYPE     12     17     11     10
D178V1, multiclass
[1] "Remove cluster labels:" "CCDC150 MUTATED"       
clus
  CCDC150 MUTATED CCDC150 WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC150 MUTATED        1      0      0      0      0
  CCDC150 WILD-TYPE     11     10      7      7     15
D178V2, multiclass
[1] "Remove cluster labels:" "CCDC150 MUTATED"       
clus
  CCDC150 MUTATED CCDC150 WILD-TYPE 
                1                50 
       TCGA-A5-A0G3        TCGA-A5-A0G5        TCGA-A5-A0GA        TCGA-A5-A0GB 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-A5-A0GE        TCGA-A5-A0GH        TCGA-A5-A0GM        TCGA-A5-A0GP 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-A5-A0GU        TCGA-AP-A051        TCGA-AP-A052        TCGA-AP-A053 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A054        TCGA-AP-A05A        TCGA-AP-A05D        TCGA-AP-A05H 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A05J        TCGA-AP-A05N        TCGA-AP-A05P        TCGA-AP-A0L8 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A0L9        TCGA-AP-A0LD        TCGA-AP-A0LG        TCGA-AP-A0LH 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AP-A0LJ        TCGA-AP-A0LN        TCGA-AP-A0LT        TCGA-AP-A0LV 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A05S        TCGA-AX-A05T        TCGA-AX-A05U        TCGA-AX-A05W 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A05Y        TCGA-AX-A05Z        TCGA-AX-A060        TCGA-AX-A062 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A063        TCGA-AX-A064        TCGA-AX-A06B        TCGA-AX-A0IW 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-AX-A0J1        TCGA-B5-A0JR        TCGA-B5-A0JZ        TCGA-B5-A0K0 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-B5-A0K1        TCGA-B5-A0K4        TCGA-BG-A0LW        TCGA-BG-A0MI 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
       TCGA-BK-A0C9        TCGA-BK-A0CC 
"CCDC150 WILD-TYPE" "CCDC150 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCDC150 MUTATED        0     11      0      0      0
  CCDC150 WILD-TYPE     56    141     11      5     18
D178V3, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               0                56
  CLUS_2              11               141
  CLUS_3               0                11
  CLUS_4               0                 5
  CLUS_5               0                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
  CCDC150 MUTATED        2      1      6
  CCDC150 WILD-TYPE     41     38     47
D178V4, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                38
  CLUS_3               6                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 CLUS_4 CLUS_5 CLUS_6
  CCDC150 MUTATED        4      4      2      1      0      1
  CCDC150 WILD-TYPE     35     32     35      9     40     23
D178V5, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               4                35
  CLUS_2               4                32
  CLUS_3               2                35
  CLUS_4               1                 9
  CLUS_5               0                40
  CLUS_6               1                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC150 MUTATED        7      1      3      1
  CCDC150 WILD-TYPE     58     63     37     16
D178V6, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               7                58
  CLUS_2               1                63
  CLUS_3               3                37
  CLUS_4               1                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC150 MUTATED        4      3      5
  CCDC150 WILD-TYPE     75     82     78
D178V7, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               4                75
  CLUS_2               3                82
  CLUS_3               5                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
  CCDC150 MUTATED        0      0      1      4      3      2      2
  CCDC150 WILD-TYPE     44     41     16     29     32     29     44
D178V8, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               0                44
  CLUS_2               0                41
  CLUS_3               1                16
  CLUS_4               4                29
  CLUS_5               3                32
  CLUS_6               2                29
  CLUS_7               2                44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC150 MUTATED        3      3      5
  CCDC150 WILD-TYPE     66     76     87
D178V9, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               3                66
  CLUS_2               3                76
  CLUS_3               5                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
  CCDC150 MUTATED        5      0      4      2
  CCDC150 WILD-TYPE     68     43     75     43
D178V10, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               5                68
  CLUS_2               0                43
  CLUS_3               4                75
  CLUS_4               2                43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC150 MUTATED        2      1      4
  CCDC150 WILD-TYPE     27     18     60
D178V11, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               2                27
  CLUS_2               1                18
  CLUS_3               4                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
  CCDC150 MUTATED        2      2      3
  CCDC150 WILD-TYPE     31     46     28
D178V12, multiclass
        clus
vv       CCDC150 MUTATED CCDC150 WILD-TYPE
  CLUS_1               2                31
  CLUS_2               2                46
  CLUS_3               3                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"

Clustering(179) Variable = NT5C3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NT5C3 MUTATED        2      1      1      0
  NT5C3 WILD-TYPE     10     17     10     10
D179V1, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             1              10
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5C3 MUTATED        1      0      2      1      0
  NT5C3 WILD-TYPE     11     10      5      6     15
D179V2, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             2               5
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NT5C3 MUTATED        0      7      0      0      0
  NT5C3 WILD-TYPE     56    145     11      5     18
D179V3, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             7             145
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             0              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
  NT5C3 MUTATED        1      0      1
  NT5C3 WILD-TYPE     42     39     52
D179V4, multiclass
[1] "Remove cluster labels:" "NT5C3 MUTATED"         
clus
  NT5C3 MUTATED NT5C3 WILD-TYPE 
              2             133 
     TCGA-A5-A0GQ      TCGA-A5-A0VO      TCGA-AJ-A23M      TCGA-AP-A0LF 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A06H      TCGA-AX-A06L 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AX-A0IS      TCGA-AX-A1C7      TCGA-AX-A1C8      TCGA-AX-A1CP 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JT      TCGA-B5-A0K8 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11E      TCGA-B5-A11F      TCGA-B5-A11G      TCGA-B5-A11H 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11I      TCGA-B5-A11J      TCGA-B5-A11M      TCGA-B5-A11N 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11O      TCGA-B5-A11Q      TCGA-B5-A11R      TCGA-B5-A11S 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11U      TCGA-B5-A11V      TCGA-B5-A11W      TCGA-B5-A11X 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11Y      TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A1MY      TCGA-BG-A0VT      TCGA-BG-A0VV      TCGA-BG-A0VW 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A0VX      TCGA-BG-A0VZ      TCGA-BG-A0W1      TCGA-BG-A0W2 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A0YU      TCGA-BG-A0YV      TCGA-BG-A186      TCGA-BG-A187 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A18A      TCGA-BG-A18B      TCGA-BG-A18C      TCGA-BG-A2AE 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BK-A0CA      TCGA-BK-A0CC      TCGA-BK-A139      TCGA-BK-A13C 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BS-A0T9      TCGA-BS-A0U5      TCGA-BS-A0U9      TCGA-BS-A0UA 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BS-A0UL      TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BS-A0WQ      TCGA-D1-A0ZN      TCGA-D1-A0ZO      TCGA-D1-A0ZP 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A0ZQ      TCGA-D1-A0ZR      TCGA-D1-A0ZS      TCGA-D1-A0ZU 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A0ZV      TCGA-D1-A0ZZ      TCGA-D1-A101      TCGA-D1-A102 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A103      TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A15Z      TCGA-D1-A160      TCGA-D1-A161      TCGA-D1-A163 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168      TCGA-D1-A169 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E      TCGA-D1-A16F 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J      TCGA-D1-A16N 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R      TCGA-D1-A16S 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174      TCGA-D1-A176 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B      TCGA-D1-A17C 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H      TCGA-D1-A17K 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N      TCGA-D1-A17Q 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T      TCGA-D1-A17U 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH      TCGA-DI-A1NN 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8      TCGA-EY-A1GS 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW      TCGA-FI-A2EX 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-FI-A2F8 
"NT5C3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NT5C3 MUTATED        2      2      0      1      1      0
  NT5C3 WILD-TYPE     37     34     37      9     39     24
D179V5, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             2              34
  CLUS_3             0              37
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NT5C3 MUTATED        2      3      1      0
  NT5C3 WILD-TYPE     63     61     39     17
D179V6, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3              61
  CLUS_3             1              39
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NT5C3 MUTATED        3      3      1
  NT5C3 WILD-TYPE     76     82     82
D179V7, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             3              82
  CLUS_3             1              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
  NT5C3 MUTATED        0      0      1      2      3      1      0
  NT5C3 WILD-TYPE     44     41     16     31     32     30     46
D179V8, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             2              31
  CLUS_5             3              32
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NT5C3 MUTATED        2      4      0
  NT5C3 WILD-TYPE     67     75     92
D179V9, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              75
  CLUS_3             0              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
  NT5C3 MUTATED        4      1      0      1
  NT5C3 WILD-TYPE     69     42     79     44
D179V10, multiclass
        clus
vv       NT5C3 MUTATED NT5C3 WILD-TYPE
  CLUS_1             4              69
  CLUS_2             1              42
  CLUS_3             0              79
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NT5C3 MUTATED        0      1      0
  NT5C3 WILD-TYPE     29     18     64
D179V11, multiclass
[1] "Remove cluster labels:" "NT5C3 MUTATED"         
clus
  NT5C3 MUTATED NT5C3 WILD-TYPE 
              1             111 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A064 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17T      TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-DI-A0WH      TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-EO-A1Y8      TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-FI-A2EW      TCGA-FI-A2EX      TCGA-FI-A2F8 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NT5C3 MUTATED        1      0      0
  NT5C3 WILD-TYPE     32     48     31
D179V12, multiclass
[1] "Remove cluster labels:" "NT5C3 MUTATED"         
clus
  NT5C3 MUTATED NT5C3 WILD-TYPE 
              1             111 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A064 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-D1-A17T      TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-DI-A0WH      TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-EO-A1Y8      TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 
     TCGA-FI-A2EW      TCGA-FI-A2EX      TCGA-FI-A2F8 
"NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" "NT5C3 WILD-TYPE" 

Clustering(180) Variable = APAF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APAF1 MUTATED        3      2      0      0
  APAF1 WILD-TYPE      9     16     11     10
D180V1, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             2              16
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      1      2      0
  APAF1 WILD-TYPE     10     10      6      5     15
D180V2, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     10      1      0      2
  APAF1 WILD-TYPE     56    142     10      5     16
D180V3, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            10             142
  CLUS_3             1              10
  CLUS_4             0               5
  CLUS_5             2              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
  APAF1 MUTATED        0      0      3
  APAF1 WILD-TYPE     43     39     50
D180V4, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             0              39
  CLUS_3             3              50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      4      2      1      2      1
  APAF1 WILD-TYPE     38     32     35      9     38     23
D180V5, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             4              32
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      4      3      1
  APAF1 WILD-TYPE     62     60     37     16
D180V6, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             4              60
  CLUS_3             3              37
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      8      1
  APAF1 WILD-TYPE     75     77     82
D180V7, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             4              75
  CLUS_2             8              77
  CLUS_3             1              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
  APAF1 MUTATED        0      2      0      5      6      0      0
  APAF1 WILD-TYPE     44     39     17     28     29     31     46
D180V8, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             2              39
  CLUS_3             0              17
  CLUS_4             5              28
  CLUS_5             6              29
  CLUS_6             0              31
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        2      7      3
  APAF1 WILD-TYPE     67     72     89
D180V9, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             7              72
  CLUS_3             3              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
  APAF1 MUTATED        7      3      2      0
  APAF1 WILD-TYPE     66     40     77     45
D180V10, multiclass
        clus
vv       APAF1 MUTATED APAF1 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             3              40
  CLUS_3             2              77
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      0      1
  APAF1 WILD-TYPE     28     19     63
D180V11, multiclass
[1] "Remove cluster labels:" "APAF1 MUTATED"         
clus
  APAF1 MUTATED APAF1 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JT 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  APAF1 MUTATED        0      0      2
  APAF1 WILD-TYPE     33     48     29
D180V12, multiclass
[1] "Remove cluster labels:" "APAF1 MUTATED"         
clus
  APAF1 MUTATED APAF1 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AP-A059      TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-AX-A1CP      TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JT 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A160 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A161      TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A168      TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A16E      TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A16J      TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A16R      TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A174      TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17B      TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17H      TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17N      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"APAF1 WILD-TYPE" "APAF1 WILD-TYPE" 

Clustering(181) Variable = KANK4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KANK4 MUTATED        1      1      0      0
  KANK4 WILD-TYPE     11     17     11     10
D181V1, multiclass
[1] "Remove cluster labels:" "KANK4 MUTATED"         
clus
  KANK4 MUTATED KANK4 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LV      TCGA-AX-A05S 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W      TCGA-AX-A05Y 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-BK-A0CC 
"KANK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KANK4 MUTATED        1      0      0      1      0
  KANK4 WILD-TYPE     11     10      7      6     15
D181V2, multiclass
[1] "Remove cluster labels:" "KANK4 MUTATED"         
clus
  KANK4 MUTATED KANK4 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LV      TCGA-AX-A05S 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W      TCGA-AX-A05Y 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062      TCGA-AX-A063 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW      TCGA-AX-A0J1 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" "KANK4 WILD-TYPE" 
     TCGA-BK-A0CC 
"KANK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KANK4 MUTATED        0      7      0      0      3
  KANK4 WILD-TYPE     56    145     11      5     15
D181V3, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             0              56
  CLUS_2             7             145
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             3              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KANK4 MUTATED        2      1      5
  KANK4 WILD-TYPE     41     38     48
D181V4, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  KANK4 MUTATED        4      5      1      0      0      0
  KANK4 WILD-TYPE     35     31     36     10     40     24
D181V5, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             4              35
  CLUS_2             5              31
  CLUS_3             1              36
  CLUS_4             0              10
  CLUS_5             0              40
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KANK4 MUTATED        6      4      0      0
  KANK4 WILD-TYPE     59     60     40     17
D181V6, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             6              59
  CLUS_2             4              60
  CLUS_3             0              40
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KANK4 MUTATED        6      3      2
  KANK4 WILD-TYPE     73     82     81
D181V7, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             3              82
  CLUS_3             2              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
  KANK4 MUTATED        0      1      1      3      4      1      1
  KANK4 WILD-TYPE     44     40     16     30     31     30     45
D181V8, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             3              30
  CLUS_5             4              31
  CLUS_6             1              30
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KANK4 MUTATED        3      4      3
  KANK4 WILD-TYPE     66     75     89
D181V9, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2             4              75
  CLUS_3             3              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
  KANK4 MUTATED        6      0      3      1
  KANK4 WILD-TYPE     67     43     76     44
D181V10, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             6              67
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KANK4 MUTATED        2      1      4
  KANK4 WILD-TYPE     27     18     60
D181V11, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             2              27
  CLUS_2             1              18
  CLUS_3             4              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
  KANK4 MUTATED        2      2      3
  KANK4 WILD-TYPE     31     46     28
D181V12, multiclass
        clus
vv       KANK4 MUTATED KANK4 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             2              46
  CLUS_3             3              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"

Clustering(182) Variable = NRIP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRIP1 MUTATED        2      1      0      0
  NRIP1 WILD-TYPE     10     17     11     10
D182V1, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRIP1 MUTATED        1      0      0      2      0
  NRIP1 WILD-TYPE     11     10      7      5     15
D182V2, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             0               7
  CLUS_4             2               5
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRIP1 MUTATED        1     10      0      0      2
  NRIP1 WILD-TYPE     55    142     11      5     16
D182V3, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            10             142
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  NRIP1 MUTATED        3      1      3
  NRIP1 WILD-TYPE     40     38     50
D182V4, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             3              40
  CLUS_2             1              38
  CLUS_3             3              50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRIP1 MUTATED        3      4      2      1      1      0
  NRIP1 WILD-TYPE     36     32     35      9     39     24
D182V5, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             4              32
  CLUS_3             2              35
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRIP1 MUTATED        4      4      3      0
  NRIP1 WILD-TYPE     61     60     37     17
D182V6, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4              60
  CLUS_3             3              37
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NRIP1 MUTATED        6      5      2
  NRIP1 WILD-TYPE     73     80     81
D182V7, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             5              80
  CLUS_3             2              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
  NRIP1 MUTATED        0      0      2      5      5      0      1
  NRIP1 WILD-TYPE     44     41     15     28     30     31     45
D182V8, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             2              15
  CLUS_4             5              28
  CLUS_5             5              30
  CLUS_6             0              31
  CLUS_7             1              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NRIP1 MUTATED        4      7      2
  NRIP1 WILD-TYPE     65     72     90
D182V9, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             7              72
  CLUS_3             2              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
  NRIP1 MUTATED        7      0      3      3
  NRIP1 WILD-TYPE     66     43     76     42
D182V10, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             0              43
  CLUS_3             3              76
  CLUS_4             3              42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NRIP1 MUTATED        1      2      2
  NRIP1 WILD-TYPE     28     17     62
D182V11, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             2              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
  NRIP1 MUTATED        2      1      2
  NRIP1 WILD-TYPE     31     47     29
D182V12, multiclass
        clus
vv       NRIP1 MUTATED NRIP1 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             1              47
  CLUS_3             2              29
[1] 3 2
[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 = GTF2H1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF2H1 MUTATED        1      2      0      0
  GTF2H1 WILD-TYPE     11     16     11     10
D183V1, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2H1 MUTATED        2      0      1      0      0
  GTF2H1 WILD-TYPE     10     10      6      7     15
D183V2, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2H1 MUTATED        0      8      0      0      0
  GTF2H1 WILD-TYPE     56    144     11      5     18
D183V3, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  GTF2H1 MUTATED        1      0      2
  GTF2H1 WILD-TYPE     42     39     51
D183V4, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GTF2H1 MUTATED        2      1      2      0      1      2
  GTF2H1 WILD-TYPE     37     35     35     10     39     22
D183V5, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              1               35
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              1               39
  CLUS_6              2               22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF2H1 MUTATED        1      3      2      2
  GTF2H1 WILD-TYPE     64     61     38     15
D183V6, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              3               61
  CLUS_3              2               38
  CLUS_4              2               15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2H1 MUTATED        2      5      1
  GTF2H1 WILD-TYPE     77     80     82
D183V7, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              5               80
  CLUS_3              1               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
  GTF2H1 MUTATED        0      1      1      6      0      0      0
  GTF2H1 WILD-TYPE     44     40     16     27     35     31     46
D183V8, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              1               16
  CLUS_4              6               27
  CLUS_5              0               35
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2H1 MUTATED        2      3      3
  GTF2H1 WILD-TYPE     67     76     89
D183V9, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              3               76
  CLUS_3              3               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
  GTF2H1 MUTATED        3      2      1      2
  GTF2H1 WILD-TYPE     70     41     78     43
D183V10, multiclass
        clus
vv       GTF2H1 MUTATED GTF2H1 WILD-TYPE
  CLUS_1              3               70
  CLUS_2              2               41
  CLUS_3              1               78
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2H1 MUTATED        0      1      1
  GTF2H1 WILD-TYPE     29     18     63
D183V11, multiclass
[1] "Remove cluster labels:" "GTF2H1 MUTATED"        
clus
  GTF2H1 MUTATED GTF2H1 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2H1 MUTATED        0      0      2
  GTF2H1 WILD-TYPE     33     48     29
D183V12, multiclass
[1] "Remove cluster labels:" "GTF2H1 MUTATED"        
clus
  GTF2H1 MUTATED GTF2H1 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A1DQ       TCGA-AX-A064 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"GTF2H1 WILD-TYPE" "GTF2H1 WILD-TYPE" 

Clustering(184) Variable = ASXL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASXL2 MUTATED        2      1      0      0
  ASXL2 WILD-TYPE     10     17     11     10
D184V1, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASXL2 MUTATED        1      0      1      1      0
  ASXL2 WILD-TYPE     11     10      6      6     15
D184V2, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASXL2 MUTATED        1     11      0      0      2
  ASXL2 WILD-TYPE     55    141     11      5     16
D184V3, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              55
  CLUS_2            11             141
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             2              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
  ASXL2 MUTATED        2      1      5
  ASXL2 WILD-TYPE     41     38     48
D184V4, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  ASXL2 MUTATED        3      4      1      0      2      1
  ASXL2 WILD-TYPE     36     32     36     10     38     23
D184V5, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             4              32
  CLUS_3             1              36
  CLUS_4             0              10
  CLUS_5             2              38
  CLUS_6             1              23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASXL2 MUTATED        3      6      1      1
  ASXL2 WILD-TYPE     62     58     39     16
D184V6, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             6              58
  CLUS_3             1              39
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL2 MUTATED        6      6      2
  ASXL2 WILD-TYPE     73     79     81
D184V7, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             6              73
  CLUS_2             6              79
  CLUS_3             2              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
  ASXL2 MUTATED        1      1      1      6      4      1      0
  ASXL2 WILD-TYPE     43     40     16     27     31     30     46
D184V8, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              43
  CLUS_2             1              40
  CLUS_3             1              16
  CLUS_4             6              27
  CLUS_5             4              31
  CLUS_6             1              30
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL2 MUTATED        4      5      4
  ASXL2 WILD-TYPE     65     74     88
D184V9, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             4              65
  CLUS_2             5              74
  CLUS_3             4              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
  ASXL2 MUTATED        7      2      3      1
  ASXL2 WILD-TYPE     66     41     76     44
D184V10, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             7              66
  CLUS_2             2              41
  CLUS_3             3              76
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL2 MUTATED        1      2      3
  ASXL2 WILD-TYPE     28     17     61
D184V11, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              28
  CLUS_2             2              17
  CLUS_3             3              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
  ASXL2 MUTATED        2      0      4
  ASXL2 WILD-TYPE     31     48     27
D184V12, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2              31
  CLUS_2             0              48
  CLUS_3             4              27
[1] 3 2
[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 = ZNF611 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF611 MUTATED        1      1      1      0
  ZNF611 WILD-TYPE     11     17     10     10
D185V1, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              1               17
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF611 MUTATED        1      0      2      0      0
  ZNF611 WILD-TYPE     11     10      5      7     15
D185V2, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF611 MUTATED        1     11      0      0      0
  ZNF611 WILD-TYPE     55    141     11      5     18
D185V3, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              1               55
  CLUS_2             11              141
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              0               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
  ZNF611 MUTATED        3      0      5
  ZNF611 WILD-TYPE     40     39     48
D185V4, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              0               39
  CLUS_3              5               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 CLUS_4 CLUS_5 CLUS_6
  ZNF611 MUTATED        5      2      2      1      0      1
  ZNF611 WILD-TYPE     34     34     35      9     40     23
D185V5, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              5               34
  CLUS_2              2               34
  CLUS_3              2               35
  CLUS_4              1                9
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF611 MUTATED        4      4      2      1
  ZNF611 WILD-TYPE     61     60     38     16
D185V6, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              4               60
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF611 MUTATED        5      5      2
  ZNF611 WILD-TYPE     74     80     81
D185V7, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              5               80
  CLUS_3              2               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
  ZNF611 MUTATED        1      0      1      6      3      1      0
  ZNF611 WILD-TYPE     43     41     16     27     32     30     46
D185V8, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              1               43
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              6               27
  CLUS_5              3               32
  CLUS_6              1               30
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF611 MUTATED        2      7      3
  ZNF611 WILD-TYPE     67     72     89
D185V9, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              7               72
  CLUS_3              3               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
  ZNF611 MUTATED        9      1      1      1
  ZNF611 WILD-TYPE     64     42     78     44
D185V10, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              9               64
  CLUS_2              1               42
  CLUS_3              1               78
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF611 MUTATED        0      2      3
  ZNF611 WILD-TYPE     29     17     61
D185V11, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              0               29
  CLUS_2              2               17
  CLUS_3              3               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
  ZNF611 MUTATED        1      0      4
  ZNF611 WILD-TYPE     32     48     27
D185V12, multiclass
        clus
vv       ZNF611 MUTATED ZNF611 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              0               48
  CLUS_3              4               27
[1] 3 2
[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 = SUN3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SUN3 MUTATED        1      0      0      0
  SUN3 WILD-TYPE     11     18     11     10
D186V1, multiclass
[1] "Remove cluster labels:" "SUN3 MUTATED"          
clus
  SUN3 MUTATED SUN3 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SUN3 MUTATED        0      0      1      0      0
  SUN3 WILD-TYPE     12     10      6      7     15
D186V2, multiclass
[1] "Remove cluster labels:" "SUN3 MUTATED"          
clus
  SUN3 MUTATED SUN3 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SUN3 MUTATED        0      6      0      0      0
  SUN3 WILD-TYPE     56    146     11      5     18
D186V3, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            6            146
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            0             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
  SUN3 MUTATED        1      0      1
  SUN3 WILD-TYPE     42     39     52
D186V4, multiclass
[1] "Remove cluster labels:" "SUN3 MUTATED"          
clus
  SUN3 MUTATED SUN3 WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A06H     TCGA-AX-A06L 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A0IS     TCGA-AX-A1C7     TCGA-AX-A1C8     TCGA-AX-A1CP 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JT     TCGA-B5-A0K8 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11E     TCGA-B5-A11F     TCGA-B5-A11G     TCGA-B5-A11H 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11I     TCGA-B5-A11J     TCGA-B5-A11M     TCGA-B5-A11N 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R     TCGA-B5-A11S 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11U     TCGA-B5-A11V     TCGA-B5-A11W     TCGA-B5-A11X 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11Y     TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A1MY     TCGA-BG-A0VT     TCGA-BG-A0VV     TCGA-BG-A0VW 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A0VX     TCGA-BG-A0VZ     TCGA-BG-A0W1     TCGA-BG-A0W2 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A0YU     TCGA-BG-A0YV     TCGA-BG-A186     TCGA-BG-A187 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C     TCGA-BG-A2AE 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139     TCGA-BK-A13C 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BS-A0T9     TCGA-BS-A0U5     TCGA-BS-A0U9     TCGA-BS-A0UA 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BS-A0UL     TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BS-A0WQ     TCGA-D1-A0ZN     TCGA-D1-A0ZO     TCGA-D1-A0ZP 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS     TCGA-D1-A0ZU 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101     TCGA-D1-A102 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H     TCGA-D1-A17K 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N     TCGA-D1-A17Q 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-FI-A2F8 
"SUN3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SUN3 MUTATED        2      2      0      1      1      0
  SUN3 WILD-TYPE     37     34     37      9     39     24
D186V5, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            2             34
  CLUS_3            0             37
  CLUS_4            1              9
  CLUS_5            1             39
  CLUS_6            0             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SUN3 MUTATED        2      3      1      0
  SUN3 WILD-TYPE     63     61     39     17
D186V6, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3             61
  CLUS_3            1             39
  CLUS_4            0             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN3 MUTATED        2      4      0
  SUN3 WILD-TYPE     77     81     83
D186V7, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            2             77
  CLUS_2            4             81
  CLUS_3            0             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
  SUN3 MUTATED        0      1      0      2      3      0      0
  SUN3 WILD-TYPE     44     40     17     31     32     31     46
D186V8, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            0             17
  CLUS_4            2             31
  CLUS_5            3             32
  CLUS_6            0             31
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN3 MUTATED        1      5      0
  SUN3 WILD-TYPE     68     74     92
D186V9, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            5             74
  CLUS_3            0             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
  SUN3 MUTATED        4      1      0      1
  SUN3 WILD-TYPE     69     42     79     44
D186V10, multiclass
        clus
vv       SUN3 MUTATED SUN3 WILD-TYPE
  CLUS_1            4             69
  CLUS_2            1             42
  CLUS_3            0             79
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN3 MUTATED        0      1      0
  SUN3 WILD-TYPE     29     18     64
D186V11, multiclass
[1] "Remove cluster labels:" "SUN3 MUTATED"          
clus
  SUN3 MUTATED SUN3 WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN3 MUTATED        0      0      1
  SUN3 WILD-TYPE     33     48     30
D186V12, multiclass
[1] "Remove cluster labels:" "SUN3 MUTATED"          
clus
  SUN3 MUTATED SUN3 WILD-TYPE 
             1            111 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A1DQ     TCGA-AX-A064 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A06H     TCGA-AX-A06L     TCGA-AX-A1C8     TCGA-AX-A1CP 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-B5-A11Z     TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-BS-A0V6     TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A160 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"SUN3 WILD-TYPE" "SUN3 WILD-TYPE" "SUN3 WILD-TYPE" 

Clustering(187) Variable = ZNF195 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF195 MUTATED        1      1      0      0
  ZNF195 WILD-TYPE     11     17     11     10
D187V1, multiclass
[1] "Remove cluster labels:" "ZNF195 MUTATED"        
clus
  ZNF195 MUTATED ZNF195 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF195 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF195 MUTATED        1      0      1      0      0
  ZNF195 WILD-TYPE     11     10      6      7     15
D187V2, multiclass
[1] "Remove cluster labels:" "ZNF195 MUTATED"        
clus
  ZNF195 MUTATED ZNF195 WILD-TYPE 
               2               49 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A060       TCGA-AX-A062       TCGA-AX-A063 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW       TCGA-AX-A0J1 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0       TCGA-B5-A0K1 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI       TCGA-BK-A0C9 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BK-A0CC 
"ZNF195 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF195 MUTATED        0      9      0      0      2
  ZNF195 WILD-TYPE     56    143     11      5     16
D187V3, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              9              143
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  ZNF195 MUTATED        1      0      4
  ZNF195 WILD-TYPE     42     39     49
D187V4, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              4               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 CLUS_4 CLUS_5 CLUS_6
  ZNF195 MUTATED        2      5      1      1      0      1
  ZNF195 WILD-TYPE     37     31     36      9     40     23
D187V5, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              5               31
  CLUS_3              1               36
  CLUS_4              1                9
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF195 MUTATED        4      3      2      1
  ZNF195 WILD-TYPE     61     61     38     16
D187V6, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              3               61
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF195 MUTATED        5      5      1
  ZNF195 WILD-TYPE     74     80     82
D187V7, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              5               74
  CLUS_2              5               80
  CLUS_3              1               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
  ZNF195 MUTATED        0      0      1      3      7      0      0
  ZNF195 WILD-TYPE     44     41     16     30     28     31     46
D187V8, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              3               30
  CLUS_5              7               28
  CLUS_6              0               31
  CLUS_7              0               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF195 MUTATED        4      4      2
  ZNF195 WILD-TYPE     65     75     90
D187V9, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              4               65
  CLUS_2              4               75
  CLUS_3              2               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
  ZNF195 MUTATED        6      1      2      1
  ZNF195 WILD-TYPE     67     42     77     44
D187V10, multiclass
        clus
vv       ZNF195 MUTATED ZNF195 WILD-TYPE
  CLUS_1              6               67
  CLUS_2              1               42
  CLUS_3              2               77
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF195 MUTATED        0      0      2
  ZNF195 WILD-TYPE     29     19     62
D187V11, multiclass
[1] "Remove cluster labels:" "ZNF195 MUTATED"        
clus
  ZNF195 MUTATED ZNF195 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF195 MUTATED        0      0      2
  ZNF195 WILD-TYPE     33     48     29
D187V12, multiclass
[1] "Remove cluster labels:" "ZNF195 MUTATED"        
clus
  ZNF195 MUTATED ZNF195 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZO       TCGA-D1-A0ZQ       TCGA-D1-A0ZS 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A102       TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A160       TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A167       TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A16D       TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A16I       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"ZNF195 WILD-TYPE" "ZNF195 WILD-TYPE" 

Clustering(188) Variable = EXOSC9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EXOSC9 MUTATED        1      2      0      0
  EXOSC9 WILD-TYPE     11     16     11     10
D188V1, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              1               11
  CLUS_2              2               16
  CLUS_3              0               11
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXOSC9 MUTATED        2      0      1      0      0
  EXOSC9 WILD-TYPE     10     10      6      7     15
D188V2, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              2               10
  CLUS_2              0               10
  CLUS_3              1                6
  CLUS_4              0                7
  CLUS_5              0               15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EXOSC9 MUTATED        0      9      0      0      1
  EXOSC9 WILD-TYPE     56    143     11      5     17
D188V3, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              9              143
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  EXOSC9 MUTATED        0      0      3
  EXOSC9 WILD-TYPE     43     39     50
D188V4, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              0               43
  CLUS_2              0               39
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EXOSC9 MUTATED        2      3      2      0      0      1
  EXOSC9 WILD-TYPE     37     33     35     10     40     23
D188V5, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              3               33
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EXOSC9 MUTATED        4      1      2      1
  EXOSC9 WILD-TYPE     61     63     38     16
D188V6, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              1               63
  CLUS_3              2               38
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EXOSC9 MUTATED        3      5      2
  EXOSC9 WILD-TYPE     76     80     81
D188V7, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              3               76
  CLUS_2              5               80
  CLUS_3              2               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
  EXOSC9 MUTATED        0      0      0      4      5      0      1
  EXOSC9 WILD-TYPE     44     41     17     29     30     31     45
D188V8, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              0               17
  CLUS_4              4               29
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EXOSC9 MUTATED        2      4      3
  EXOSC9 WILD-TYPE     67     75     89
D188V9, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              4               75
  CLUS_3              3               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
  EXOSC9 MUTATED        2      1      3      3
  EXOSC9 WILD-TYPE     71     42     76     42
D188V10, multiclass
        clus
vv       EXOSC9 MUTATED EXOSC9 WILD-TYPE
  CLUS_1              2               71
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              3               42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EXOSC9 MUTATED        0      0      2
  EXOSC9 WILD-TYPE     29     19     62
D188V11, multiclass
[1] "Remove cluster labels:" "EXOSC9 MUTATED"        
clus
  EXOSC9 MUTATED EXOSC9 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EXOSC9 MUTATED        0      1      1
  EXOSC9 WILD-TYPE     33     47     30
D188V12, multiclass
[1] "Remove cluster labels:" "EXOSC9 MUTATED"        
clus
  EXOSC9 MUTATED EXOSC9 WILD-TYPE 
               2              110 
      TCGA-A5-A0GB       TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-AP-A059       TCGA-AP-A0LF       TCGA-AP-A0LM       TCGA-AP-A1DQ 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-AX-A064       TCGA-AX-A06H       TCGA-AX-A06L       TCGA-AX-A1C8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-AX-A1CP       TCGA-AX-A2H5       TCGA-AX-A2HF       TCGA-B5-A0JR 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A0JT       TCGA-B5-A0K8       TCGA-B5-A11G       TCGA-B5-A11H 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A11J       TCGA-B5-A11M       TCGA-B5-A11N       TCGA-B5-A11O 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A11Q       TCGA-B5-A11R       TCGA-B5-A11S       TCGA-B5-A11U 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A11W       TCGA-B5-A11Z       TCGA-B5-A121       TCGA-B5-A1MU 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-B5-A1MY       TCGA-BG-A0VV       TCGA-BG-A0VW       TCGA-BG-A0VX 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BG-A0YV       TCGA-BG-A186       TCGA-BG-A187       TCGA-BG-A18A 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BG-A18B       TCGA-BG-A18C       TCGA-BG-A2AE       TCGA-BK-A0CA 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BK-A0CC       TCGA-BK-A139       TCGA-BK-A13C       TCGA-BS-A0T9 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-BS-A0UA       TCGA-BS-A0V6       TCGA-BS-A0V7       TCGA-BS-A0V8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A0ZN       TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A15V       TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A161       TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A168       TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A16E       TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A16J       TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A16R       TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A174       TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17B       TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17H       TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17N       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"EXOSC9 WILD-TYPE" "EXOSC9 WILD-TYPE" 

Clustering(189) Variable = MFN2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFN2 MUTATED        0      0      0      0
  MFN2 WILD-TYPE     12     18     11     10
D189V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFN2 MUTATED        0      0      0      0      0
  MFN2 WILD-TYPE     12     10      7      7     15
D189V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MFN2 MUTATED        0      8      0      0      1
  MFN2 WILD-TYPE     56    144     11      5     17
D189V3, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            8            144
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  MFN2 MUTATED        1      2      3
  MFN2 WILD-TYPE     42     37     50
D189V4, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            2             37
  CLUS_3            3             50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MFN2 MUTATED        1      2      0      0      3      1
  MFN2 WILD-TYPE     38     34     37     10     37     23
D189V5, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            2             34
  CLUS_3            0             37
  CLUS_4            0             10
  CLUS_5            3             37
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MFN2 MUTATED        3      3      0      1
  MFN2 WILD-TYPE     62     61     40     16
D189V6, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            3             62
  CLUS_2            3             61
  CLUS_3            0             40
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN2 MUTATED        3      4      2
  MFN2 WILD-TYPE     76     81     81
D189V7, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            3             76
  CLUS_2            4             81
  CLUS_3            2             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
  MFN2 MUTATED        0      1      0      3      3      0      2
  MFN2 WILD-TYPE     44     40     17     30     32     31     44
D189V8, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            1             40
  CLUS_3            0             17
  CLUS_4            3             30
  CLUS_5            3             32
  CLUS_6            0             31
  CLUS_7            2             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN2 MUTATED        0      6      3
  MFN2 WILD-TYPE     69     73     89
D189V9, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            6             73
  CLUS_3            3             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
  MFN2 MUTATED        6      0      2      1
  MFN2 WILD-TYPE     67     43     77     44
D189V10, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            6             67
  CLUS_2            0             43
  CLUS_3            2             77
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MFN2 MUTATED        0      2      2
  MFN2 WILD-TYPE     29     17     62
D189V11, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            2             17
  CLUS_3            2             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
  MFN2 MUTATED        1      1      2
  MFN2 WILD-TYPE     32     47     29
D189V12, multiclass
        clus
vv       MFN2 MUTATED MFN2 WILD-TYPE
  CLUS_1            1             32
  CLUS_2            1             47
  CLUS_3            2             29
[1] 3 2
[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 = LIMA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIMA1 MUTATED        1      0      0      0
  LIMA1 WILD-TYPE     11     18     11     10
D190V1, multiclass
[1] "Remove cluster labels:" "LIMA1 MUTATED"         
clus
  LIMA1 MUTATED LIMA1 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIMA1 MUTATED        0      0      0      1      0
  LIMA1 WILD-TYPE     12     10      7      6     15
D190V2, multiclass
[1] "Remove cluster labels:" "LIMA1 MUTATED"         
clus
  LIMA1 MUTATED LIMA1 WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A052      TCGA-AP-A053      TCGA-AP-A054 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D      TCGA-AP-A05H 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIMA1 MUTATED        1      6      0      0      1
  LIMA1 WILD-TYPE     55    146     11      5     17
D190V3, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             1              55
  CLUS_2             6             146
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  LIMA1 MUTATED        1      0      3
  LIMA1 WILD-TYPE     42     39     50
D190V4, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             0              39
  CLUS_3             3              50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LIMA1 MUTATED        1      2      1      1      1      2
  LIMA1 WILD-TYPE     38     34     36      9     39     22
D190V5, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              34
  CLUS_3             1              36
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             2              22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIMA1 MUTATED        1      4      2      1
  LIMA1 WILD-TYPE     64     60     38     16
D190V6, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             4              60
  CLUS_3             2              38
  CLUS_4             1              16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LIMA1 MUTATED        2      6      0
  LIMA1 WILD-TYPE     77     79     83
D190V7, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             2              77
  CLUS_2             6              79
  CLUS_3             0              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
  LIMA1 MUTATED        0      0      1      4      3      0      0
  LIMA1 WILD-TYPE     44     41     16     29     32     31     46
D190V8, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             1              16
  CLUS_4             4              29
  CLUS_5             3              32
  CLUS_6             0              31
  CLUS_7             0              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LIMA1 MUTATED        2      4      2
  LIMA1 WILD-TYPE     67     75     90
D190V9, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             2              67
  CLUS_2             4              75
  CLUS_3             2              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
  LIMA1 MUTATED        8      0      0      0
  LIMA1 WILD-TYPE     65     43     79     45
D190V10, multiclass
        clus
vv       LIMA1 MUTATED LIMA1 WILD-TYPE
  CLUS_1             8              65
  CLUS_2             0              43
  CLUS_3             0              79
  CLUS_4             0              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LIMA1 MUTATED        0      1      1
  LIMA1 WILD-TYPE     29     18     63
D190V11, multiclass
[1] "Remove cluster labels:" "LIMA1 MUTATED"         
clus
  LIMA1 MUTATED LIMA1 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A064 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A161 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LIMA1 MUTATED        2      0      0
  LIMA1 WILD-TYPE     31     48     31
D190V12, multiclass
[1] "Remove cluster labels:" "LIMA1 MUTATED"         
clus
  LIMA1 MUTATED LIMA1 WILD-TYPE 
              2             110 
     TCGA-A5-A0GB      TCGA-A5-A0GN      TCGA-A5-A0GQ      TCGA-AJ-A23M 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AP-A0LF      TCGA-AP-A0LM      TCGA-AP-A1DQ      TCGA-AX-A064 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A06H      TCGA-AX-A06L      TCGA-AX-A1C8      TCGA-AX-A1CP 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-AX-A2H5      TCGA-AX-A2HF      TCGA-B5-A0JR      TCGA-B5-A0JT 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A0K8      TCGA-B5-A11G      TCGA-B5-A11H      TCGA-B5-A11J 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A11M      TCGA-B5-A11N      TCGA-B5-A11O      TCGA-B5-A11Q 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A11R      TCGA-B5-A11S      TCGA-B5-A11U      TCGA-B5-A11W 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-B5-A11Z      TCGA-B5-A121      TCGA-B5-A1MU      TCGA-B5-A1MY 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BG-A0VV      TCGA-BG-A0VW      TCGA-BG-A0VX      TCGA-BG-A0YV 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BG-A186      TCGA-BG-A187      TCGA-BG-A18A      TCGA-BG-A18B 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BG-A18C      TCGA-BG-A2AE      TCGA-BK-A0CA      TCGA-BK-A0CC 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BK-A139      TCGA-BK-A13C      TCGA-BS-A0T9      TCGA-BS-A0UA 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-BS-A0V6      TCGA-BS-A0V7      TCGA-BS-A0V8      TCGA-D1-A0ZN 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A0ZO      TCGA-D1-A0ZQ      TCGA-D1-A0ZS      TCGA-D1-A102 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A15V      TCGA-D1-A15W      TCGA-D1-A15X      TCGA-D1-A161 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A163      TCGA-D1-A165      TCGA-D1-A167      TCGA-D1-A168 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A169      TCGA-D1-A16B      TCGA-D1-A16D      TCGA-D1-A16E 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A16F      TCGA-D1-A16G      TCGA-D1-A16I      TCGA-D1-A16J 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A16N      TCGA-D1-A16O      TCGA-D1-A16Q      TCGA-D1-A16R 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A16S      TCGA-D1-A16X      TCGA-D1-A16Y      TCGA-D1-A174 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A176      TCGA-D1-A177      TCGA-D1-A17A      TCGA-D1-A17B 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17C      TCGA-D1-A17D      TCGA-D1-A17F      TCGA-D1-A17H 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17K      TCGA-D1-A17L      TCGA-D1-A17M      TCGA-D1-A17N 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17Q      TCGA-D1-A17R      TCGA-D1-A17S      TCGA-D1-A17T 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-D1-A17U      TCGA-D1-A1NU      TCGA-D1-A1NX      TCGA-DI-A0WH 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-DI-A1NN      TCGA-E6-A1LZ      TCGA-EO-A1Y5      TCGA-EO-A1Y8 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-EY-A1GS      TCGA-EY-A212      TCGA-FI-A2D2      TCGA-FI-A2EW 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 
     TCGA-FI-A2EX      TCGA-FI-A2F8 
"LIMA1 WILD-TYPE" "LIMA1 WILD-TYPE" 

Clustering(191) Variable = PTPN12 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPN12 MUTATED        3      0      1      0
  PTPN12 WILD-TYPE      9     18     10     10
D191V1, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              3                9
  CLUS_2              0               18
  CLUS_3              1               10
  CLUS_4              0               10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      1      1
  PTPN12 WILD-TYPE     12     10      5      6     14
D191V2, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              0               12
  CLUS_2              0               10
  CLUS_3              2                5
  CLUS_4              1                6
  CLUS_5              1               14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      8      0      0      2
  PTPN12 WILD-TYPE     56    144     11      5     16
D191V3, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              0               56
  CLUS_2              8              144
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              2               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
  PTPN12 MUTATED        1      0      2
  PTPN12 WILD-TYPE     42     39     51
D191V4, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              0               39
  CLUS_3              2               51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      2      1      4      0      1
  PTPN12 WILD-TYPE     37     34     36      6     40     23
D191V5, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              2               34
  CLUS_3              1               36
  CLUS_4              4                6
  CLUS_5              0               40
  CLUS_6              1               23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      3      5      1
  PTPN12 WILD-TYPE     64     61     35     16
D191V6, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              3               61
  CLUS_3              5               35
  CLUS_4              1               16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      2
  PTPN12 WILD-TYPE     77     79     81
D191V7, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              2               77
  CLUS_2              6               79
  CLUS_3              2               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
  PTPN12 MUTATED        0      0      1      2      5      0      2
  PTPN12 WILD-TYPE     44     41     16     31     30     31     44
D191V8, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              0               41
  CLUS_3              1               16
  CLUS_4              2               31
  CLUS_5              5               30
  CLUS_6              0               31
  CLUS_7              2               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      4
  PTPN12 WILD-TYPE     66     76     88
D191V9, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              3               66
  CLUS_2              3               76
  CLUS_3              4               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
  PTPN12 MUTATED        5      1      3      1
  PTPN12 WILD-TYPE     68     42     76     44
D191V10, multiclass
        clus
vv       PTPN12 MUTATED PTPN12 WILD-TYPE
  CLUS_1              5               68
  CLUS_2              1               42
  CLUS_3              3               76
  CLUS_4              1               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      0
  PTPN12 WILD-TYPE     28     18     64
D191V11, multiclass
[1] "Remove cluster labels:" "PTPN12 MUTATED"        
clus
  PTPN12 MUTATED PTPN12 WILD-TYPE 
               2              110 
      TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M       TCGA-AP-A0LF 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064       TCGA-AX-A06H 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP       TCGA-AX-A2H5 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT       TCGA-B5-A0K8 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J       TCGA-B5-A11M 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q       TCGA-B5-A11R 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W       TCGA-B5-A11Z 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VV 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV       TCGA-BG-A186 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA       TCGA-BS-A0V6 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102       TCGA-D1-A15V 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160       TCGA-D1-A161 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PTPN12 MUTATED        1      0      1
  PTPN12 WILD-TYPE     32     48     30
D191V12, multiclass
[1] "Remove cluster labels:" "PTPN12 MUTATED"        
clus
  PTPN12 MUTATED PTPN12 WILD-TYPE 
               2              110 
      TCGA-A5-A0GN       TCGA-A5-A0GQ       TCGA-AJ-A23M       TCGA-AP-A0LF 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-AP-A0LM       TCGA-AP-A1DQ       TCGA-AX-A064       TCGA-AX-A06H 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-AX-A06L       TCGA-AX-A1C8       TCGA-AX-A1CP       TCGA-AX-A2H5 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-AX-A2HF       TCGA-B5-A0JR       TCGA-B5-A0JT       TCGA-B5-A0K8 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A11G       TCGA-B5-A11H       TCGA-B5-A11J       TCGA-B5-A11M 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A11N       TCGA-B5-A11O       TCGA-B5-A11Q       TCGA-B5-A11R 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A11S       TCGA-B5-A11U       TCGA-B5-A11W       TCGA-B5-A11Z 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-B5-A121       TCGA-B5-A1MU       TCGA-B5-A1MY       TCGA-BG-A0VV 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BG-A0VW       TCGA-BG-A0VX       TCGA-BG-A0YV       TCGA-BG-A186 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BG-A187       TCGA-BG-A18A       TCGA-BG-A18B       TCGA-BG-A18C 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BG-A2AE       TCGA-BK-A0CA       TCGA-BK-A0CC       TCGA-BK-A139 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BK-A13C       TCGA-BS-A0T9       TCGA-BS-A0UA       TCGA-BS-A0V6 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-BS-A0V7       TCGA-BS-A0V8       TCGA-D1-A0ZN       TCGA-D1-A0ZO 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A0ZQ       TCGA-D1-A0ZS       TCGA-D1-A102       TCGA-D1-A15V 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A15W       TCGA-D1-A15X       TCGA-D1-A160       TCGA-D1-A161 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A163       TCGA-D1-A165       TCGA-D1-A167       TCGA-D1-A168 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A169       TCGA-D1-A16B       TCGA-D1-A16D       TCGA-D1-A16E 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A16F       TCGA-D1-A16G       TCGA-D1-A16I       TCGA-D1-A16J 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A16N       TCGA-D1-A16O       TCGA-D1-A16Q       TCGA-D1-A16R 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A16S       TCGA-D1-A16X       TCGA-D1-A16Y       TCGA-D1-A174 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A176       TCGA-D1-A177       TCGA-D1-A17A       TCGA-D1-A17B 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17C       TCGA-D1-A17D       TCGA-D1-A17F       TCGA-D1-A17H 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17K       TCGA-D1-A17L       TCGA-D1-A17M       TCGA-D1-A17N 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17Q       TCGA-D1-A17R       TCGA-D1-A17S       TCGA-D1-A17T 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-D1-A17U       TCGA-D1-A1NU       TCGA-D1-A1NX       TCGA-DI-A0WH 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-DI-A1NN       TCGA-E6-A1LZ       TCGA-EO-A1Y5       TCGA-EO-A1Y8 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-EY-A1GS       TCGA-EY-A212       TCGA-FI-A2D2       TCGA-FI-A2EW 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 
      TCGA-FI-A2EX       TCGA-FI-A2F8 
"PTPN12 WILD-TYPE" "PTPN12 WILD-TYPE" 

Clustering(192) Variable = MTF2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTF2 MUTATED        0      1      1      0
  MTF2 WILD-TYPE     12     17     10     10
D192V1, multiclass
[1] "Remove cluster labels:" "MTF2 MUTATED"          
clus
  MTF2 MUTATED MTF2 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GU 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H     TCGA-AP-A05J 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8     TCGA-AP-A0L9 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-BK-A0CC 
"MTF2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTF2 MUTATED        1      0      1      0      0
  MTF2 WILD-TYPE     11     10      6      7     15
D192V2, multiclass
[1] "Remove cluster labels:" "MTF2 MUTATED"          
clus
  MTF2 MUTATED MTF2 WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GU 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H     TCGA-AP-A05J 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8     TCGA-AP-A0L9 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" "MTF2 WILD-TYPE" 
    TCGA-BK-A0CC 
"MTF2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTF2 MUTATED        0      8      0      0      1
  MTF2 WILD-TYPE     56    144     11      5     17
D192V3, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            0             56
  CLUS_2            8            144
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            1             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
  MTF2 MUTATED        1      0      5
  MTF2 WILD-TYPE     42     39     48
D192V4, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            0             39
  CLUS_3            5             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 CLUS_4 CLUS_5 CLUS_6
  MTF2 MUTATED        1      3      1      1      0      1
  MTF2 WILD-TYPE     38     33     36      9     40     23
D192V5, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             33
  CLUS_3            1             36
  CLUS_4            1              9
  CLUS_5            0             40
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTF2 MUTATED        2      2      2      1
  MTF2 WILD-TYPE     63     62     38     16
D192V6, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2             62
  CLUS_3            2             38
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF2 MUTATED        4      3      2
  MTF2 WILD-TYPE     75     82     81
D192V7, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            4             75
  CLUS_2            3             82
  CLUS_3            2             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
  MTF2 MUTATED        0      0      0      4      4      1      0
  MTF2 WILD-TYPE     44     41     17     29     31     30     46
D192V8, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            0             41
  CLUS_3            0             17
  CLUS_4            4             29
  CLUS_5            4             31
  CLUS_6            1             30
  CLUS_7            0             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF2 MUTATED        1      4      3
  MTF2 WILD-TYPE     68     75     89
D192V9, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            1             68
  CLUS_2            4             75
  CLUS_3            3             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
  MTF2 MUTATED        5      0      2      1
  MTF2 WILD-TYPE     68     43     77     44
D192V10, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            5             68
  CLUS_2            0             43
  CLUS_3            2             77
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTF2 MUTATED        0      1      2
  MTF2 WILD-TYPE     29     18     62
D192V11, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            0             29
  CLUS_2            1             18
  CLUS_3            2             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
  MTF2 MUTATED        0      0      3
  MTF2 WILD-TYPE     33     48     28
D192V12, multiclass
        clus
vv       MTF2 MUTATED MTF2 WILD-TYPE
  CLUS_1            0             33
  CLUS_2            0             48
  CLUS_3            3             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"

Clustering(193) Variable = MLL4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MLL4 MUTATED        2      1      1      0
  MLL4 WILD-TYPE     10     17     10     10
D193V1, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            1             10
  CLUS_4            0             10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      2      1      0
  MLL4 WILD-TYPE     11     10      5      6     15
D193V2, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            0             10
  CLUS_3            2              5
  CLUS_4            1              6
  CLUS_5            0             15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0     27      0      0      2
  MLL4 WILD-TYPE     56    125     11      5     16
D193V3, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            0             56
  CLUS_2           27            125
  CLUS_3            0             11
  CLUS_4            0              5
  CLUS_5            2             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
  MLL4 MUTATED        4      2     12
  MLL4 WILD-TYPE     39     37     41
D193V4, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            4             39
  CLUS_2            2             37
  CLUS_3           12             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 CLUS_4 CLUS_5 CLUS_6
  MLL4 MUTATED        8      4      2      1      4      1
  MLL4 WILD-TYPE     31     32     35      9     36     23
D193V5, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            8             31
  CLUS_2            4             32
  CLUS_3            2             35
  CLUS_4            1              9
  CLUS_5            4             36
  CLUS_6            1             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      8      3      1
  MLL4 WILD-TYPE     57     56     37     16
D193V6, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            8             57
  CLUS_2            8             56
  CLUS_3            3             37
  CLUS_4            1             16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7     13     10
  MLL4 WILD-TYPE     72     72     73
D193V7, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            7             72
  CLUS_2           13             72
  CLUS_3           10             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MLL4 MUTATED        0      2      2     10      6      6      4
  MLL4 WILD-TYPE     44     39     15     23     29     25     42
D193V8, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            0             44
  CLUS_2            2             39
  CLUS_3            2             15
  CLUS_4           10             23
  CLUS_5            6             29
  CLUS_6            6             25
  CLUS_7            4             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        4     10     14
  MLL4 WILD-TYPE     65     69     78
D193V9, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            4             65
  CLUS_2           10             69
  CLUS_3           14             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
  MLL4 MUTATED       14      2     11      1
  MLL4 WILD-TYPE     59     41     68     44
D193V10, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1           14             59
  CLUS_2            2             41
  CLUS_3           11             68
  CLUS_4            1             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      4      8
  MLL4 WILD-TYPE     27     15     56
D193V11, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            2             27
  CLUS_2            4             15
  CLUS_3            8             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
  MLL4 MUTATED        4      5      5
  MLL4 WILD-TYPE     29     43     26
D193V12, multiclass
        clus
vv       MLL4 MUTATED MLL4 WILD-TYPE
  CLUS_1            4             29
  CLUS_2            5             43
  CLUS_3            5             26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(194) Variable = C1ORF101 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF101 MUTATED        1      1      2      0
  C1ORF101 WILD-TYPE     11     17      9     10
D194V1, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                 17
  CLUS_3                2                  9
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF101 MUTATED        1      0      2      0      1
  C1ORF101 WILD-TYPE     11     10      5      7     14
D194V2, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                 10
  CLUS_3                2                  5
  CLUS_4                0                  7
  CLUS_5                1                 14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF101 MUTATED        0     10      0      0      2
  C1ORF101 WILD-TYPE     56    142     11      5     16
D194V3, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                0                 56
  CLUS_2               10                142
  CLUS_3                0                 11
  CLUS_4                0                  5
  CLUS_5                2                 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
  C1ORF101 MUTATED        2      1      1
  C1ORF101 WILD-TYPE     41     38     52
D194V4, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 38
  CLUS_3                1                 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
  C1ORF101 MUTATED        3      2      1      2      1      0
  C1ORF101 WILD-TYPE     36     34     36      8     39     24
D194V5, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                3                 36
  CLUS_2                2                 34
  CLUS_3                1                 36
  CLUS_4                2                  8
  CLUS_5                1                 39
  CLUS_6                0                 24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF101 MUTATED        3      4      2      0
  C1ORF101 WILD-TYPE     62     60     38     17
D194V6, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                3                 62
  CLUS_2                4                 60
  CLUS_3                2                 38
  CLUS_4                0                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF101 MUTATED        6      3      3
  C1ORF101 WILD-TYPE     73     82     80
D194V7, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                6                 73
  CLUS_2                3                 82
  CLUS_3                3                 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
  C1ORF101 MUTATED        1      1      1      3      3      1      2
  C1ORF101 WILD-TYPE     43     40     16     30     32     30     44
D194V8, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                1                 43
  CLUS_2                1                 40
  CLUS_3                1                 16
  CLUS_4                3                 30
  CLUS_5                3                 32
  CLUS_6                1                 30
  CLUS_7                2                 44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF101 MUTATED        3      6      2
  C1ORF101 WILD-TYPE     66     73     90
D194V9, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2                6                 73
  CLUS_3                2                 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
  C1ORF101 MUTATED        4      2      3      2
  C1ORF101 WILD-TYPE     69     41     76     43
D194V10, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                4                 69
  CLUS_2                2                 41
  CLUS_3                3                 76
  CLUS_4                2                 43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF101 MUTATED        1      2      0
  C1ORF101 WILD-TYPE     28     17     64
D194V11, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                2                 17
  CLUS_3                0                 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
  C1ORF101 MUTATED        2      0      1
  C1ORF101 WILD-TYPE     31     48     30
D194V12, multiclass
        clus
vv       C1ORF101 MUTATED C1ORF101 WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                0                 48
  CLUS_3                1                 30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(195) Variable = MBOAT2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBOAT2 MUTATED        0      1      0      0
  MBOAT2 WILD-TYPE     12     17     11     10
D195V1, multiclass
[1] "Remove cluster labels:" "MBOAT2 MUTATED"        
clus
  MBOAT2 MUTATED MBOAT2 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBOAT2 MUTATED        1      0      0      0      0
  MBOAT2 WILD-TYPE     11     10      7      7     15
D195V2, multiclass
[1] "Remove cluster labels:" "MBOAT2 MUTATED"        
clus
  MBOAT2 MUTATED MBOAT2 WILD-TYPE 
               1               50 
      TCGA-A5-A0G3       TCGA-A5-A0G5       TCGA-A5-A0GA       TCGA-A5-A0GB 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-A5-A0GE       TCGA-A5-A0GH       TCGA-A5-A0GM       TCGA-A5-A0GP 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-A5-A0GU       TCGA-AP-A051       TCGA-AP-A052       TCGA-AP-A053 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A054       TCGA-AP-A05A       TCGA-AP-A05D       TCGA-AP-A05H 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A05J       TCGA-AP-A05N       TCGA-AP-A05P       TCGA-AP-A0L8 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A0L9       TCGA-AP-A0LD       TCGA-AP-A0LG       TCGA-AP-A0LH 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AP-A0LJ       TCGA-AP-A0LN       TCGA-AP-A0LT       TCGA-AP-A0LV 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A05S       TCGA-AX-A05T       TCGA-AX-A05U       TCGA-AX-A05W 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A05Y       TCGA-AX-A05Z       TCGA-AX-A060       TCGA-AX-A062 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A063       TCGA-AX-A064       TCGA-AX-A06B       TCGA-AX-A0IW 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-AX-A0J1       TCGA-B5-A0JR       TCGA-B5-A0JZ       TCGA-B5-A0K0 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-B5-A0K1       TCGA-B5-A0K4       TCGA-BG-A0LW       TCGA-BG-A0MI 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
      TCGA-BK-A0C9       TCGA-BK-A0CC 
"MBOAT2 WILD-TYPE" "MBOAT2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MBOAT2 MUTATED        1      5      0      0      1
  MBOAT2 WILD-TYPE     55    147     11      5     17
D195V3, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              1               55
  CLUS_2              5              147
  CLUS_3              0               11
  CLUS_4              0                5
  CLUS_5              1               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
  MBOAT2 MUTATED        1      1      3
  MBOAT2 WILD-TYPE     42     38     50
D195V4, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               38
  CLUS_3              3               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MBOAT2 MUTATED        1      2      2      0      0      0
  MBOAT2 WILD-TYPE     38     34     35     10     40     24
D195V5, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              2               34
  CLUS_3              2               35
  CLUS_4              0               10
  CLUS_5              0               40
  CLUS_6              0               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBOAT2 MUTATED        3      0      2      0
  MBOAT2 WILD-TYPE     62     64     38     17
D195V6, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              0               64
  CLUS_3              2               38
  CLUS_4              0               17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MBOAT2 MUTATED        4      1      2
  MBOAT2 WILD-TYPE     75     84     81
D195V7, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              4               75
  CLUS_2              1               84
  CLUS_3              2               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
  MBOAT2 MUTATED        0      1      1      1      3      0      1
  MBOAT2 WILD-TYPE     44     40     16     32     32     31     45
D195V8, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              0               44
  CLUS_2              1               40
  CLUS_3              1               16
  CLUS_4              1               32
  CLUS_5              3               32
  CLUS_6              0               31
  CLUS_7              1               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MBOAT2 MUTATED        2      2      2
  MBOAT2 WILD-TYPE     67     77     90
D195V9, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              2               77
  CLUS_3              2               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
  MBOAT2 MUTATED        1      0      3      2
  MBOAT2 WILD-TYPE     72     43     76     43
D195V10, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              1               72
  CLUS_2              0               43
  CLUS_3              3               76
  CLUS_4              2               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MBOAT2 MUTATED        1      0      3
  MBOAT2 WILD-TYPE     28     19     61
D195V11, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              1               28
  CLUS_2              0               19
  CLUS_3              3               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
  MBOAT2 MUTATED        1      1      2
  MBOAT2 WILD-TYPE     32     47     29
D195V12, multiclass
        clus
vv       MBOAT2 MUTATED MBOAT2 WILD-TYPE
  CLUS_1              1               32
  CLUS_2              1               47
  CLUS_3              2               29
[1] 3 2
[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 = CHD4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD4 MUTATED        1      6      0      2
  CHD4 WILD-TYPE     11     12     11      8
D196V1, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            6             12
  CLUS_3            0             11
  CLUS_4            2              8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD4 MUTATED        2      4      0      1      2
  CHD4 WILD-TYPE     10      6      7      6     13
D196V2, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            4              6
  CLUS_3            0              7
  CLUS_4            1              6
  CLUS_5            2             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 CLUS_4 CLUS_5
  CHD4 MUTATED        8     24      1      0      2
  CHD4 WILD-TYPE     48    128     10      5     16
D196V3, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            8             48
  CLUS_2           24            128
  CLUS_3            1             10
  CLUS_4            0              5
  CLUS_5            2             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
  CHD4 MUTATED        7      4      8
  CHD4 WILD-TYPE     36     35     45
D196V4, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            4             35
  CLUS_3            8             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 CLUS_4 CLUS_5 CLUS_6
  CHD4 MUTATED        7      6      5      1      5      3
  CHD4 WILD-TYPE     32     30     32      9     35     21
D196V5, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            7             32
  CLUS_2            6             30
  CLUS_3            5             32
  CLUS_4            1              9
  CLUS_5            5             35
  CLUS_6            3             21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD4 MUTATED       11      9      3      4
  CHD4 WILD-TYPE     54     55     37     13
D196V6, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1           11             54
  CLUS_2            9             55
  CLUS_3            3             37
  CLUS_4            4             13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED       15     10     10
  CHD4 WILD-TYPE     64     75     73
D196V7, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1           15             64
  CLUS_2           10             75
  CLUS_3           10             73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CHD4 MUTATED        7      4      2      6      8      1      7
  CHD4 WILD-TYPE     37     37     15     27     27     30     39
D196V8, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            7             37
  CLUS_2            4             37
  CLUS_3            2             15
  CLUS_4            6             27
  CLUS_5            8             27
  CLUS_6            1             30
  CLUS_7            7             39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED        9     12      9
  CHD4 WILD-TYPE     60     67     83
D196V9, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            9             60
  CLUS_2           12             67
  CLUS_3            9             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
  CHD4 MUTATED        9      4     10      7
  CHD4 WILD-TYPE     64     39     69     38
D196V10, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            9             64
  CLUS_2            4             39
  CLUS_3           10             69
  CLUS_4            7             38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED        3      2     10
  CHD4 WILD-TYPE     26     17     54
D196V11, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            3             26
  CLUS_2            2             17
  CLUS_3           10             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
  CHD4 MUTATED        5      5      5
  CHD4 WILD-TYPE     28     43     26
D196V12, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            5             28
  CLUS_2            5             43
  CLUS_3            5             26
[1] 3 2
[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 = SESN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SESN3 MUTATED        2      2      0      0
  SESN3 WILD-TYPE     10     16     11     10
D197V1, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             2              16
  CLUS_3             0              11
  CLUS_4             0              10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SESN3 MUTATED        2      0      1      1      0
  SESN3 WILD-TYPE     10     10      6      6     15
D197V2, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             0              10
  CLUS_3             1               6
  CLUS_4             1               6
  CLUS_5             0              15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SESN3 MUTATED        0     12      0      0      1
  SESN3 WILD-TYPE     56    140     11      5     17
D197V3, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             0              56
  CLUS_2            12             140
  CLUS_3             0              11
  CLUS_4             0               5
  CLUS_5             1              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
  SESN3 MUTATED        1      1      5
  SESN3 WILD-TYPE     42     38     48
D197V4, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             1              38
  CLUS_3             5              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 CLUS_4 CLUS_5 CLUS_6
  SESN3 MUTATED        3      2      3      1      1      0
  SESN3 WILD-TYPE     36     34     34      9     39     24
D197V5, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             2              34
  CLUS_3             3              34
  CLUS_4             1               9
  CLUS_5             1              39
  CLUS_6             0              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SESN3 MUTATED        3      3      4      0
  SESN3 WILD-TYPE     62     61     36     17
D197V6, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             3              61
  CLUS_3             4              36
  CLUS_4             0              17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SESN3 MUTATED        3      6      4
  SESN3 WILD-TYPE     76     79     79
D197V7, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             3              76
  CLUS_2             6              79
  CLUS_3             4              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
  SESN3 MUTATED        0      0      0      5      5      1      2
  SESN3 WILD-TYPE     44     41     17     28     30     30     44
D197V8, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             0              44
  CLUS_2             0              41
  CLUS_3             0              17
  CLUS_4             5              28
  CLUS_5             5              30
  CLUS_6             1              30
  CLUS_7             2              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SESN3 MUTATED        1      5      6
  SESN3 WILD-TYPE     68     74     86
D197V9, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             5              74
  CLUS_3             6              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
  SESN3 MUTATED        5      1      5      1
  SESN3 WILD-TYPE     68     42     74     44
D197V10, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             5              68
  CLUS_2             1              42
  CLUS_3             5              74
  CLUS_4             1              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SESN3 MUTATED        0      1      5
  SESN3 WILD-TYPE     29     18     59
D197V11, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             0              29
  CLUS_2             1              18
  CLUS_3             5              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
  SESN3 MUTATED        1      2      3
  SESN3 WILD-TYPE     32     46     28
D197V12, multiclass
        clus
vv       SESN3 MUTATED SESN3 WILD-TYPE
  CLUS_1             1              32
  CLUS_2             2              46
  CLUS_3             3              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"
