[1] "ofn"        "-oTLUAD-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/LUAD-TP/15111023/LUAD-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LUAD-TP/15246506/transformed.cor.cli.txt"

nPatients in clinical file=519, in cluster file=533, common to both=481
[1] "Reduce the number of clustering variables from 397 to 393."
[1] 393 481
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           256            225 
  TP53 MUTATED TP53 WILD-TYPE 
           256            225 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
           150            331 
  KRAS MUTATED KRAS WILD-TYPE 
           150            331 
[1] "KEAP1 MUTATION ANALYSIS"
[1] 3
  KEAP1 MUTATED KEAP1 WILD-TYPE 
             84             397 
  KEAP1 MUTATED KEAP1 WILD-TYPE 
             84             397 
[1] "EGFR MUTATION ANALYSIS"
[1] 3
  EGFR MUTATED EGFR WILD-TYPE 
            67            414 
  EGFR MUTATED EGFR WILD-TYPE 
            67            414 
[1] "RBM10 MUTATION ANALYSIS"
[1] 3
  RBM10 MUTATED RBM10 WILD-TYPE 
             33             448 
  RBM10 MUTATED RBM10 WILD-TYPE 
             33             448 
[1] "SMARCA4 MUTATION ANALYSIS"
[1] 3
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               38               443 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               38               443 
[1] "STK11 MUTATION ANALYSIS"
[1] 3
  STK11 MUTATED STK11 WILD-TYPE 
             77             404 
  STK11 MUTATED STK11 WILD-TYPE 
             77             404 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           26           455 
  RB1 MUTATED RB1 WILD-TYPE 
           26           455 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              30              451 
  ARID1A MUTATED ARID1A WILD-TYPE 
              30              451 
[1] "NF1 MUTATION ANALYSIS"
[1] 3
  NF1 MUTATED NF1 WILD-TYPE 
           55           426 
  NF1 MUTATED NF1 WILD-TYPE 
           55           426 
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
            39            442 
  BRAF MUTATED BRAF WILD-TYPE 
            39            442 
[1] "MGA MUTATION ANALYSIS"
[1] 3
  MGA MUTATED MGA WILD-TYPE 
           40           441 
  MGA MUTATED MGA WILD-TYPE 
           40           441 
[1] "CHRND MUTATION ANALYSIS"
[1] 3
  CHRND MUTATED CHRND WILD-TYPE 
             18             463 
  CHRND MUTATED CHRND WILD-TYPE 
             18             463 
[1] "MET MUTATION ANALYSIS"
[1] 3
  MET MUTATED MET WILD-TYPE 
           21           460 
  MET MUTATED MET WILD-TYPE 
           21           460 
[1] "CDKN2A MUTATION ANALYSIS"
[1] 3
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              16              465 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              16              465 
[1] "U2AF1 MUTATION ANALYSIS"
[1] 3
  U2AF1 MUTATED U2AF1 WILD-TYPE 
             12             469 
  U2AF1 MUTATED U2AF1 WILD-TYPE 
             12             469 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             30             451 
  SETD2 MUTATED SETD2 WILD-TYPE 
             30             451 
[1] "DNMT3A MUTATION ANALYSIS"
[1] 3
  DNMT3A MUTATED DNMT3A WILD-TYPE 
              19              462 
  DNMT3A MUTATED DNMT3A WILD-TYPE 
              19              462 
[1] "ERBB2 MUTATION ANALYSIS"
[1] 3
  ERBB2 MUTATED ERBB2 WILD-TYPE 
             11             470 
  ERBB2 MUTATED ERBB2 WILD-TYPE 
             11             470 
[1] "ATM MUTATION ANALYSIS"
[1] 3
  ATM MUTATED ATM WILD-TYPE 
           42           439 
  ATM MUTATED ATM WILD-TYPE 
           42           439 
[1] "COL5A2 MUTATION ANALYSIS"
[1] 3
  COL5A2 MUTATED COL5A2 WILD-TYPE 
              48              433 
  COL5A2 MUTATED COL5A2 WILD-TYPE 
              48              433 
[1] "NFE2L2 MUTATION ANALYSIS"
[1] 3
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              13              468 
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              13              468 
[1] "PPP3CA MUTATION ANALYSIS"
[1] 3
  PPP3CA MUTATED PPP3CA WILD-TYPE 
              12              469 
  PPP3CA MUTATED PPP3CA WILD-TYPE 
              12              469 
[1] "FCRLA MUTATION ANALYSIS"
[1] 3
  FCRLA MUTATED FCRLA WILD-TYPE 
             15             466 
  FCRLA MUTATED FCRLA WILD-TYPE 
             15             466 
[1] "ARID2 MUTATION ANALYSIS"
[1] 3
  ARID2 MUTATED ARID2 WILD-TYPE 
             24             457 
  ARID2 MUTATED ARID2 WILD-TYPE 
             24             457 
[1] "SLAMF9 MUTATION ANALYSIS"
[1] 3
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
              12              469 
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
              12              469 
[1] "SLC4A3 MUTATION ANALYSIS"
[1] 3
  SLC4A3 MUTATED SLC4A3 WILD-TYPE 
              18              463 
  SLC4A3 MUTATED SLC4A3 WILD-TYPE 
              18              463 
[1] "SP100 MUTATION ANALYSIS"
[1] 3
  SP100 MUTATED SP100 WILD-TYPE 
             16             465 
  SP100 MUTATED SP100 WILD-TYPE 
             16             465 
[1] "RPL5 MUTATION ANALYSIS"
[1] 3
  RPL5 MUTATED RPL5 WILD-TYPE 
             8            473 
  RPL5 MUTATED RPL5 WILD-TYPE 
             8            473 
[1] "AACS MUTATION ANALYSIS"
[1] 3
  AACS MUTATED AACS WILD-TYPE 
            18            463 
  AACS MUTATED AACS WILD-TYPE 
            18            463 
[1] "ITGBL1 MUTATION ANALYSIS"
[1] 3
  ITGBL1 MUTATED ITGBL1 WILD-TYPE 
              19              462 
  ITGBL1 MUTATED ITGBL1 WILD-TYPE 
              19              462 
[1] "NLRP6 MUTATION ANALYSIS"
[1] 3
  NLRP6 MUTATED NLRP6 WILD-TYPE 
             10             471 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
             10             471 
[1] "STIM1 MUTATION ANALYSIS"
[1] 3
  STIM1 MUTATED STIM1 WILD-TYPE 
              9             472 
  STIM1 MUTATED STIM1 WILD-TYPE 
              9             472 
[1] "NCKAP1L MUTATION ANALYSIS"
[1] 3
  NCKAP1L MUTATED NCKAP1L WILD-TYPE 
               19               462 
  NCKAP1L MUTATED NCKAP1L WILD-TYPE 
               19               462 
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              19              462 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              19              462 
[1] "PLEKHB2 MUTATION ANALYSIS"
[1] 3
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                9               472 
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                9               472 
[1] "G3BP1 MUTATION ANALYSIS"
[1] 3
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              8             473 
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              8             473 
[1] "TLR9 MUTATION ANALYSIS"
[1] 3
  TLR9 MUTATED TLR9 WILD-TYPE 
            10            471 
  TLR9 MUTATED TLR9 WILD-TYPE 
            10            471 
[1] "PDE6A MUTATION ANALYSIS"
[1] 3
  PDE6A MUTATED PDE6A WILD-TYPE 
             16             465 
  PDE6A MUTATED PDE6A WILD-TYPE 
             16             465 
[1] "DUSP22 MUTATION ANALYSIS"
[1] 3
  DUSP22 MUTATED DUSP22 WILD-TYPE 
              17              464 
  DUSP22 MUTATED DUSP22 WILD-TYPE 
              17              464 
[1] "MMP19 MUTATION ANALYSIS"
[1] 3
  MMP19 MUTATED MMP19 WILD-TYPE 
             10             471 
  MMP19 MUTATED MMP19 WILD-TYPE 
             10             471 
[1] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
           20           461 
  APC MUTATED APC WILD-TYPE 
           20           461 
[1] "STRA8 MUTATION ANALYSIS"
[1] 3
  STRA8 MUTATED STRA8 WILD-TYPE 
              8             473 
  STRA8 MUTATED STRA8 WILD-TYPE 
              8             473 
[1] "A2M MUTATION ANALYSIS"
[1] 3
  A2M MUTATED A2M WILD-TYPE 
           20           461 
  A2M MUTATED A2M WILD-TYPE 
           20           461 
[1] "CD244 MUTATION ANALYSIS"
[1] 3
  CD244 MUTATED CD244 WILD-TYPE 
             12             469 
  CD244 MUTATED CD244 WILD-TYPE 
             12             469 
[1] "SRPX MUTATION ANALYSIS"
[1] 3
  SRPX MUTATED SRPX WILD-TYPE 
            16            465 
  SRPX MUTATED SRPX WILD-TYPE 
            16            465 
[1] "GAGE2D MUTATION ANALYSIS"
[1] 3
  GAGE2D MUTATED GAGE2D WILD-TYPE 
               5              476 
  GAGE2D MUTATED GAGE2D WILD-TYPE 
               5              476 
[1] "ADNP2 MUTATION ANALYSIS"
[1] 3
  ADNP2 MUTATED ADNP2 WILD-TYPE 
             24             457 
  ADNP2 MUTATED ADNP2 WILD-TYPE 
             24             457 
[1] "GLDC MUTATION ANALYSIS"
[1] 3
  GLDC MUTATED GLDC WILD-TYPE 
            21            460 
  GLDC MUTATED GLDC WILD-TYPE 
            21            460 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              28              453 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              28              453 
[1] "MED12 MUTATION ANALYSIS"
[1] 3
  MED12 MUTATED MED12 WILD-TYPE 
             37             444 
  MED12 MUTATED MED12 WILD-TYPE 
             37             444 
[1] "TRERF1 MUTATION ANALYSIS"
[1] 3
  TRERF1 MUTATED TRERF1 WILD-TYPE 
              18              463 
  TRERF1 MUTATED TRERF1 WILD-TYPE 
              18              463 
[1] "DSC2 MUTATION ANALYSIS"
[1] 3
  DSC2 MUTATED DSC2 WILD-TYPE 
            20            461 
  DSC2 MUTATED DSC2 WILD-TYPE 
            20            461 
[1] "BTK MUTATION ANALYSIS"
[1] 3
  BTK MUTATED BTK WILD-TYPE 
           16           465 
  BTK MUTATED BTK WILD-TYPE 
           16           465 
[1] "KIF18B MUTATION ANALYSIS"
[1] 3
  KIF18B MUTATED KIF18B WILD-TYPE 
               4              477 
  KIF18B MUTATED KIF18B WILD-TYPE 
               4              477 
[1] "WDR66 MUTATION ANALYSIS"
[1] 3
  WDR66 MUTATED WDR66 WILD-TYPE 
             14             467 
  WDR66 MUTATED WDR66 WILD-TYPE 
             14             467 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
             7            474 
  PTEN MUTATED PTEN WILD-TYPE 
             7            474 
[1] "LTBP1 MUTATION ANALYSIS"
[1] 3
  LTBP1 MUTATED LTBP1 WILD-TYPE 
             46             435 
  LTBP1 MUTATED LTBP1 WILD-TYPE 
             46             435 
[1] "C10ORF71 MUTATION ANALYSIS"
[1] 3
  C10ORF71 MUTATED C10ORF71 WILD-TYPE 
                17                464 
  C10ORF71 MUTATED C10ORF71 WILD-TYPE 
                17                464 
[1] "KLHL5 MUTATION ANALYSIS"
[1] 3
  KLHL5 MUTATED KLHL5 WILD-TYPE 
             14             467 
  KLHL5 MUTATED KLHL5 WILD-TYPE 
             14             467 
[1] "FAM65C MUTATION ANALYSIS"
[1] 3
  FAM65C MUTATED FAM65C WILD-TYPE 
              14              467 
  FAM65C MUTATED FAM65C WILD-TYPE 
              14              467 
[1] "KRTAP5-10 MUTATION ANALYSIS"
[1] 3
  KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE 
                 12                 469 
  KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE 
                 12                 469 
[1] "PAK1 MUTATION ANALYSIS"
[1] 3
  PAK1 MUTATED PAK1 WILD-TYPE 
             9            472 
  PAK1 MUTATED PAK1 WILD-TYPE 
             9            472 
[1] "ABCC4 MUTATION ANALYSIS"
[1] 3
  ABCC4 MUTATED ABCC4 WILD-TYPE 
             19             462 
  ABCC4 MUTATED ABCC4 WILD-TYPE 
             19             462 
[1] "HERC4 MUTATION ANALYSIS"
[1] 3
  HERC4 MUTATED HERC4 WILD-TYPE 
             13             468 
  HERC4 MUTATED HERC4 WILD-TYPE 
             13             468 
[1] "DMRTB1 MUTATION ANALYSIS"
[1] 3
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
              10              471 
  DMRTB1 MUTATED DMRTB1 WILD-TYPE 
              10              471 
[1] "C5AR1 MUTATION ANALYSIS"
[1] 3
  C5AR1 MUTATED C5AR1 WILD-TYPE 
              6             475 
  C5AR1 MUTATED C5AR1 WILD-TYPE 
              6             475 
[1] "SLC26A10 MUTATION ANALYSIS"
[1] 3
  SLC26A10 MUTATED SLC26A10 WILD-TYPE 
                14                467 
  SLC26A10 MUTATED SLC26A10 WILD-TYPE 
                14                467 
[1] "PTGIS MUTATION ANALYSIS"
[1] 3
  PTGIS MUTATED PTGIS WILD-TYPE 
             11             470 
  PTGIS MUTATED PTGIS WILD-TYPE 
             11             470 
[1] "DLX5 MUTATION ANALYSIS"
[1] 3
  DLX5 MUTATED DLX5 WILD-TYPE 
            13            468 
  DLX5 MUTATED DLX5 WILD-TYPE 
            13            468 
[1] "GPATCH4 MUTATION ANALYSIS"
[1] 3
  GPATCH4 MUTATED GPATCH4 WILD-TYPE 
                8               473 
  GPATCH4 MUTATED GPATCH4 WILD-TYPE 
                8               473 
[1] "NR4A2 MUTATION ANALYSIS"
[1] 3
  NR4A2 MUTATED NR4A2 WILD-TYPE 
             17             464 
  NR4A2 MUTATED NR4A2 WILD-TYPE 
             17             464 
[1] "ABHD12B MUTATION ANALYSIS"
[1] 3
  ABHD12B MUTATED ABHD12B WILD-TYPE 
                7               474 
  ABHD12B MUTATED ABHD12B WILD-TYPE 
                7               474 
[1] "FNDC7 MUTATION ANALYSIS"
[1] 3
  FNDC7 MUTATED FNDC7 WILD-TYPE 
             10             471 
  FNDC7 MUTATED FNDC7 WILD-TYPE 
             10             471 
[1] "RIT1 MUTATION ANALYSIS"
[1] 3
  RIT1 MUTATED RIT1 WILD-TYPE 
             8            473 
  RIT1 MUTATED RIT1 WILD-TYPE 
             8            473 
[1] "ASCL3 MUTATION ANALYSIS"
[1] 3
  ASCL3 MUTATED ASCL3 WILD-TYPE 
              7             474 
  ASCL3 MUTATED ASCL3 WILD-TYPE 
              7             474 
[1] "CD84 MUTATION ANALYSIS"
[1] 3
  CD84 MUTATED CD84 WILD-TYPE 
             6            475 
  CD84 MUTATED CD84 WILD-TYPE 
             6            475 
[1] "GYPC MUTATION ANALYSIS"
[1] 3
  GYPC MUTATED GYPC WILD-TYPE 
             6            475 
  GYPC MUTATED GYPC WILD-TYPE 
             6            475 
[1] "MYH7 MUTATION ANALYSIS"
[1] 3
  MYH7 MUTATED MYH7 WILD-TYPE 
            52            429 
  MYH7 MUTATED MYH7 WILD-TYPE 
            52            429 
[1] "UROC1 MUTATION ANALYSIS"
[1] 3
  UROC1 MUTATED UROC1 WILD-TYPE 
             15             466 
  UROC1 MUTATED UROC1 WILD-TYPE 
             15             466 
[1] "HSF5 MUTATION ANALYSIS"
[1] 3
  HSF5 MUTATED HSF5 WILD-TYPE 
            13            468 
  HSF5 MUTATED HSF5 WILD-TYPE 
            13            468 
[1] "HSPA8 MUTATION ANALYSIS"
[1] 3
  HSPA8 MUTATED HSPA8 WILD-TYPE 
              9             472 
  HSPA8 MUTATED HSPA8 WILD-TYPE 
              9             472 
[1] "HTRA1 MUTATION ANALYSIS"
[1] 3
  HTRA1 MUTATED HTRA1 WILD-TYPE 
             10             471 
  HTRA1 MUTATED HTRA1 WILD-TYPE 
             10             471 
[1] "DST MUTATION ANALYSIS"
[1] 3
  DST MUTATED DST WILD-TYPE 
           89           392 
  DST MUTATED DST WILD-TYPE 
           89           392 
[1] "SRMS MUTATION ANALYSIS"
[1] 3
  SRMS MUTATED SRMS WILD-TYPE 
            10            471 
  SRMS MUTATED SRMS WILD-TYPE 
            10            471 
[1] "PTPRU MUTATION ANALYSIS"
[1] 3
  PTPRU MUTATED PTPRU WILD-TYPE 
             18             463 
  PTPRU MUTATED PTPRU WILD-TYPE 
             18             463 
[1] "ADAM10 MUTATION ANALYSIS"
[1] 3
  ADAM10 MUTATED ADAM10 WILD-TYPE 
               8              473 
  ADAM10 MUTATED ADAM10 WILD-TYPE 
               8              473 
[1] "MRPS35 MUTATION ANALYSIS"
[1] 3
  MRPS35 MUTATED MRPS35 WILD-TYPE 
               6              475 
  MRPS35 MUTATED MRPS35 WILD-TYPE 
               6              475 
[1] "ZNF608 MUTATION ANALYSIS"
[1] 3
  ZNF608 MUTATED ZNF608 WILD-TYPE 
               9              472 
  ZNF608 MUTATED ZNF608 WILD-TYPE 
               9              472 
[1] "ARHGAP32 MUTATION ANALYSIS"
[1] 3
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                19                462 
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                19                462 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
             3            478 
  NRAS MUTATED NRAS WILD-TYPE 
             3            478 
[1] "HCLS1 MUTATION ANALYSIS"
[1] 3
  HCLS1 MUTATED HCLS1 WILD-TYPE 
             16             465 
  HCLS1 MUTATED HCLS1 WILD-TYPE 
             16             465 
[1] "KIAA0895L MUTATION ANALYSIS"
[1] 3
  KIAA0895L MUTATED KIAA0895L WILD-TYPE 
                  4                 477 
  KIAA0895L MUTATED KIAA0895L WILD-TYPE 
                  4                 477 
[1] "BMP2K MUTATION ANALYSIS"
[1] 3
  BMP2K MUTATED BMP2K WILD-TYPE 
             13             468 
  BMP2K MUTATED BMP2K WILD-TYPE 
             13             468 
[1] "DOT1L MUTATION ANALYSIS"
[1] 3
  DOT1L MUTATED DOT1L WILD-TYPE 
             14             467 
  DOT1L MUTATED DOT1L WILD-TYPE 
             14             467 
[1] "SND1 MUTATION ANALYSIS"
[1] 3
  SND1 MUTATED SND1 WILD-TYPE 
            16            465 
  SND1 MUTATED SND1 WILD-TYPE 
            16            465 
[1] "VGLL3 MUTATION ANALYSIS"
[1] 3
  VGLL3 MUTATED VGLL3 WILD-TYPE 
             17             464 
  VGLL3 MUTATED VGLL3 WILD-TYPE 
             17             464 
[1] "LUM MUTATION ANALYSIS"
[1] 3
  LUM MUTATED LUM WILD-TYPE 
           15           466 
  LUM MUTATED LUM WILD-TYPE 
           15           466 
[1] "ATP1B4 MUTATION ANALYSIS"
[1] 3
  ATP1B4 MUTATED ATP1B4 WILD-TYPE 
               9              472 
  ATP1B4 MUTATED ATP1B4 WILD-TYPE 
               9              472 
[1] "ATAD2 MUTATION ANALYSIS"
[1] 3
  ATAD2 MUTATED ATAD2 WILD-TYPE 
             14             467 
  ATAD2 MUTATED ATAD2 WILD-TYPE 
             14             467 
[1] "SLC17A9 MUTATION ANALYSIS"
[1] 3
  SLC17A9 MUTATED SLC17A9 WILD-TYPE 
                8               473 
  SLC17A9 MUTATED SLC17A9 WILD-TYPE 
                8               473 
[1] "ZNF592 MUTATION ANALYSIS"
[1] 3
  ZNF592 MUTATED ZNF592 WILD-TYPE 
              16              465 
  ZNF592 MUTATED ZNF592 WILD-TYPE 
              16              465 
[1] "ZNF556 MUTATION ANALYSIS"
[1] 3
  ZNF556 MUTATED ZNF556 WILD-TYPE 
              12              469 
  ZNF556 MUTATED ZNF556 WILD-TYPE 
              12              469 
[1] "ZEB1 MUTATION ANALYSIS"
[1] 3
  ZEB1 MUTATED ZEB1 WILD-TYPE 
            32            449 
  ZEB1 MUTATED ZEB1 WILD-TYPE 
            32            449 
[1] "SLC22A6 MUTATION ANALYSIS"
[1] 3
  SLC22A6 MUTATED SLC22A6 WILD-TYPE 
               14               467 
  SLC22A6 MUTATED SLC22A6 WILD-TYPE 
               14               467 
[1] "RABEPK MUTATION ANALYSIS"
[1] 3
  RABEPK MUTATED RABEPK WILD-TYPE 
               6              475 
  RABEPK MUTATED RABEPK WILD-TYPE 
               6              475 
[1] "CHGB MUTATION ANALYSIS"
[1] 3
  CHGB MUTATED CHGB WILD-TYPE 
            14            467 
  CHGB MUTATED CHGB WILD-TYPE 
            14            467 
[1] "ESYT3 MUTATION ANALYSIS"
[1] 3
  ESYT3 MUTATED ESYT3 WILD-TYPE 
              8             473 
  ESYT3 MUTATED ESYT3 WILD-TYPE 
              8             473 
[1] "L1CAM MUTATION ANALYSIS"
[1] 3
  L1CAM MUTATED L1CAM WILD-TYPE 
             34             447 
  L1CAM MUTATED L1CAM WILD-TYPE 
             34             447 
[1] "SLC17A3 MUTATION ANALYSIS"
[1] 3
  SLC17A3 MUTATED SLC17A3 WILD-TYPE 
               15               466 
  SLC17A3 MUTATED SLC17A3 WILD-TYPE 
               15               466 
[1] "ITIH2 MUTATION ANALYSIS"
[1] 3
  ITIH2 MUTATED ITIH2 WILD-TYPE 
             19             462 
  ITIH2 MUTATED ITIH2 WILD-TYPE 
             19             462 
[1] "HP1BP3 MUTATION ANALYSIS"
[1] 3
  HP1BP3 MUTATED HP1BP3 WILD-TYPE 
               9              472 
  HP1BP3 MUTATED HP1BP3 WILD-TYPE 
               9              472 
[1] "LAMA4 MUTATION ANALYSIS"
[1] 3
  LAMA4 MUTATED LAMA4 WILD-TYPE 
             34             447 
  LAMA4 MUTATED LAMA4 WILD-TYPE 
             34             447 
[1] "TMCO2 MUTATION ANALYSIS"
[1] 3
  TMCO2 MUTATED TMCO2 WILD-TYPE 
              6             475 
  TMCO2 MUTATED TMCO2 WILD-TYPE 
              6             475 
[1] "N4BP1 MUTATION ANALYSIS"
[1] 3
  N4BP1 MUTATED N4BP1 WILD-TYPE 
              9             472 
  N4BP1 MUTATED N4BP1 WILD-TYPE 
              9             472 
[1] "MMP13 MUTATION ANALYSIS"
[1] 3
  MMP13 MUTATED MMP13 WILD-TYPE 
             13             468 
  MMP13 MUTATED MMP13 WILD-TYPE 
             13             468 
[1] "ZACN MUTATION ANALYSIS"
[1] 3
  ZACN MUTATED ZACN WILD-TYPE 
             8            473 
  ZACN MUTATED ZACN WILD-TYPE 
             8            473 
[1] "SFTPB MUTATION ANALYSIS"
[1] 3
  SFTPB MUTATED SFTPB WILD-TYPE 
              6             475 
  SFTPB MUTATED SFTPB WILD-TYPE 
              6             475 
[1] "SRRM3 MUTATION ANALYSIS"
[1] 3
  SRRM3 MUTATED SRRM3 WILD-TYPE 
              5             476 
  SRRM3 MUTATED SRRM3 WILD-TYPE 
              5             476 
[1] "FAM71A MUTATION ANALYSIS"
[1] 3
  FAM71A MUTATED FAM71A WILD-TYPE 
              16              465 
  FAM71A MUTATED FAM71A WILD-TYPE 
              16              465 
[1] "MCM9 MUTATION ANALYSIS"
[1] 3
  MCM9 MUTATED MCM9 WILD-TYPE 
             3            478 
  MCM9 MUTATED MCM9 WILD-TYPE 
             3            478 
[1] "GRAP2 MUTATION ANALYSIS"
[1] 3
  GRAP2 MUTATED GRAP2 WILD-TYPE 
             11             470 
  GRAP2 MUTATED GRAP2 WILD-TYPE 
             11             470 
[1] "ARHGAP4 MUTATION ANALYSIS"
[1] 3
  ARHGAP4 MUTATED ARHGAP4 WILD-TYPE 
               14               467 
  ARHGAP4 MUTATED ARHGAP4 WILD-TYPE 
               14               467 
[1] "IFI35 MUTATION ANALYSIS"
[1] 3
  IFI35 MUTATED IFI35 WILD-TYPE 
              3             478 
  IFI35 MUTATED IFI35 WILD-TYPE 
              3             478 
[1] "CDK12 MUTATION ANALYSIS"
[1] 3
  CDK12 MUTATED CDK12 WILD-TYPE 
             15             466 
  CDK12 MUTATED CDK12 WILD-TYPE 
             15             466 
[1] "TMEM202 MUTATION ANALYSIS"
[1] 3
  TMEM202 MUTATED TMEM202 WILD-TYPE 
                6               475 
  TMEM202 MUTATED TMEM202 WILD-TYPE 
                6               475 
[1] "GTF2A1 MUTATION ANALYSIS"
[1] 3
  GTF2A1 MUTATED GTF2A1 WILD-TYPE 
               3              478 
  GTF2A1 MUTATED GTF2A1 WILD-TYPE 
               3              478 
[1] "SERPINB13 MUTATION ANALYSIS"
[1] 3
  SERPINB13 MUTATED SERPINB13 WILD-TYPE 
                 10                 471 
  SERPINB13 MUTATED SERPINB13 WILD-TYPE 
                 10                 471 
[1] "RAMP2 MUTATION ANALYSIS"
[1] 3
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              3             478 
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              3             478 
[1] "RNASEH1 MUTATION ANALYSIS"
[1] 3
  RNASEH1 MUTATED RNASEH1 WILD-TYPE 
                6               475 
  RNASEH1 MUTATED RNASEH1 WILD-TYPE 
                6               475 
[1] "GLTSCR1 MUTATION ANALYSIS"
[1] 3
  GLTSCR1 MUTATED GLTSCR1 WILD-TYPE 
                8               473 
  GLTSCR1 MUTATED GLTSCR1 WILD-TYPE 
                8               473 
[1] "PDE1A MUTATION ANALYSIS"
[1] 3
  PDE1A MUTATED PDE1A WILD-TYPE 
             15             466 
  PDE1A MUTATED PDE1A WILD-TYPE 
             15             466 
[1] "SATB2 MUTATION ANALYSIS"
[1] 3
  SATB2 MUTATED SATB2 WILD-TYPE 
             31             450 
  SATB2 MUTATED SATB2 WILD-TYPE 
             31             450 
[1] "RAF1 MUTATION ANALYSIS"
[1] 3
  RAF1 MUTATED RAF1 WILD-TYPE 
             6            475 
  RAF1 MUTATED RAF1 WILD-TYPE 
             6            475 
[1] "PLXND1 MUTATION ANALYSIS"
[1] 3
  PLXND1 MUTATED PLXND1 WILD-TYPE 
              15              466 
  PLXND1 MUTATED PLXND1 WILD-TYPE 
              15              466 
[1] "OFD1 MUTATION ANALYSIS"
[1] 3
  OFD1 MUTATED OFD1 WILD-TYPE 
            15            466 
  OFD1 MUTATED OFD1 WILD-TYPE 
            15            466 
[1] "APLF MUTATION ANALYSIS"
[1] 3
  APLF MUTATED APLF WILD-TYPE 
             4            477 
  APLF MUTATED APLF WILD-TYPE 
             4            477 
[1] "ADAMTS2 MUTATION ANALYSIS"
[1] 3
  ADAMTS2 MUTATED ADAMTS2 WILD-TYPE 
               39               442 
  ADAMTS2 MUTATED ADAMTS2 WILD-TYPE 
               39               442 
[1] "CAPN11 MUTATION ANALYSIS"
[1] 3
  CAPN11 MUTATED CAPN11 WILD-TYPE 
              12              469 
  CAPN11 MUTATED CAPN11 WILD-TYPE 
              12              469 
[1] "FLCN MUTATION ANALYSIS"
[1] 3
  FLCN MUTATED FLCN WILD-TYPE 
            10            471 
  FLCN MUTATED FLCN WILD-TYPE 
            10            471 
[1] "C2ORF53 MUTATION ANALYSIS"
[1] 3
  C2ORF53 MUTATED C2ORF53 WILD-TYPE 
               13               468 
  C2ORF53 MUTATED C2ORF53 WILD-TYPE 
               13               468 
[1] "C1ORF177 MUTATION ANALYSIS"
[1] 3
  C1ORF177 MUTATED C1ORF177 WILD-TYPE 
                 9                472 
  C1ORF177 MUTATED C1ORF177 WILD-TYPE 
                 9                472 
[1] "STK19 MUTATION ANALYSIS"
[1] 3
  STK19 MUTATED STK19 WILD-TYPE 
              5             476 
  STK19 MUTATED STK19 WILD-TYPE 
              5             476 
[1] "PKD2 MUTATION ANALYSIS"
[1] 3
  PKD2 MUTATED PKD2 WILD-TYPE 
            15            466 
  PKD2 MUTATED PKD2 WILD-TYPE 
            15            466 
[1] "NOTCH4 MUTATION ANALYSIS"
[1] 3
  NOTCH4 MUTATED NOTCH4 WILD-TYPE 
              43              438 
  NOTCH4 MUTATED NOTCH4 WILD-TYPE 
              43              438 
[1] "COL15A1 MUTATION ANALYSIS"
[1] 3
  COL15A1 MUTATED COL15A1 WILD-TYPE 
               31               450 
  COL15A1 MUTATED COL15A1 WILD-TYPE 
               31               450 
[1] "SOS2 MUTATION ANALYSIS"
[1] 3
  SOS2 MUTATED SOS2 WILD-TYPE 
            13            468 
  SOS2 MUTATED SOS2 WILD-TYPE 
            13            468 
[1] "SETDB1 MUTATION ANALYSIS"
[1] 3
  SETDB1 MUTATED SETDB1 WILD-TYPE 
              10              471 
  SETDB1 MUTATED SETDB1 WILD-TYPE 
              10              471 
[1] "ANTXR1 MUTATION ANALYSIS"
[1] 3
  ANTXR1 MUTATED ANTXR1 WILD-TYPE 
              19              462 
  ANTXR1 MUTATED ANTXR1 WILD-TYPE 
              19              462 
[1] "SLC38A8 MUTATION ANALYSIS"
[1] 3
  SLC38A8 MUTATED SLC38A8 WILD-TYPE 
                9               472 
  SLC38A8 MUTATED SLC38A8 WILD-TYPE 
                9               472 
[1] "COL3A1 MUTATION ANALYSIS"
[1] 3
  COL3A1 MUTATED COL3A1 WILD-TYPE 
              53              428 
  COL3A1 MUTATED COL3A1 WILD-TYPE 
              53              428 
[1] "RBBP6 MUTATION ANALYSIS"
[1] 3
  RBBP6 MUTATED RBBP6 WILD-TYPE 
             17             464 
  RBBP6 MUTATED RBBP6 WILD-TYPE 
             17             464 
[1] "RFX1 MUTATION ANALYSIS"
[1] 3
  RFX1 MUTATED RFX1 WILD-TYPE 
             9            472 
  RFX1 MUTATED RFX1 WILD-TYPE 
             9            472 
[1] "PRB2 MUTATION ANALYSIS"
[1] 3
  PRB2 MUTATED PRB2 WILD-TYPE 
            13            468 
  PRB2 MUTATED PRB2 WILD-TYPE 
            13            468 
[1] "COL25A1 MUTATION ANALYSIS"
[1] 3
  COL25A1 MUTATED COL25A1 WILD-TYPE 
               32               449 
  COL25A1 MUTATED COL25A1 WILD-TYPE 
               32               449 
[1] "PPP2R5B MUTATION ANALYSIS"
[1] 3
  PPP2R5B MUTATED PPP2R5B WILD-TYPE 
                7               474 
  PPP2R5B MUTATED PPP2R5B WILD-TYPE 
                7               474 
[1] "DZIP1L MUTATION ANALYSIS"
[1] 3
  DZIP1L MUTATED DZIP1L WILD-TYPE 
              11              470 
  DZIP1L MUTATED DZIP1L WILD-TYPE 
              11              470 
[1] "RLTPR MUTATION ANALYSIS"
[1] 3
  RLTPR MUTATED RLTPR WILD-TYPE 
             15             466 
  RLTPR MUTATED RLTPR WILD-TYPE 
             15             466 
[1] "CD40LG MUTATION ANALYSIS"
[1] 3
  CD40LG MUTATED CD40LG WILD-TYPE 
               6              475 
  CD40LG MUTATED CD40LG WILD-TYPE 
               6              475 
[1] "LGALS2 MUTATION ANALYSIS"
[1] 3
  LGALS2 MUTATED LGALS2 WILD-TYPE 
               5              476 
  LGALS2 MUTATED LGALS2 WILD-TYPE 
               5              476 
[1] "PADI2 MUTATION ANALYSIS"
[1] 3
  PADI2 MUTATED PADI2 WILD-TYPE 
             10             471 
  PADI2 MUTATED PADI2 WILD-TYPE 
             10             471 
[1] "C1ORF116 MUTATION ANALYSIS"
[1] 3
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                11                470 
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                11                470 
[1] "NBPF3 MUTATION ANALYSIS"
[1] 3
  NBPF3 MUTATED NBPF3 WILD-TYPE 
              6             475 
  NBPF3 MUTATED NBPF3 WILD-TYPE 
              6             475 
[1] "RNMT MUTATION ANALYSIS"
[1] 3
  RNMT MUTATED RNMT WILD-TYPE 
             8            473 
  RNMT MUTATED RNMT WILD-TYPE 
             8            473 
[1] "PXK MUTATION ANALYSIS"
[1] 3
  PXK MUTATED PXK WILD-TYPE 
            7           474 
  PXK MUTATED PXK WILD-TYPE 
            7           474 
[1] "ZNF223 MUTATION ANALYSIS"
[1] 3
  ZNF223 MUTATED ZNF223 WILD-TYPE 
              10              471 
  ZNF223 MUTATED ZNF223 WILD-TYPE 
              10              471 
[1] "ASXL2 MUTATION ANALYSIS"
[1] 3
  ASXL2 MUTATED ASXL2 WILD-TYPE 
             18             463 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
             18             463 
[1] "CPA4 MUTATION ANALYSIS"
[1] 3
  CPA4 MUTATED CPA4 WILD-TYPE 
            14            467 
  CPA4 MUTATED CPA4 WILD-TYPE 
            14            467 
[1] "SNX9 MUTATION ANALYSIS"
[1] 3
  SNX9 MUTATED SNX9 WILD-TYPE 
             7            474 
  SNX9 MUTATED SNX9 WILD-TYPE 
             7            474 
[1] "BAP1 MUTATION ANALYSIS"
[1] 3
  BAP1 MUTATED BAP1 WILD-TYPE 
             8            473 
  BAP1 MUTATED BAP1 WILD-TYPE 
             8            473 
[1] "PCSK4 MUTATION ANALYSIS"
[1] 3
  PCSK4 MUTATED PCSK4 WILD-TYPE 
              8             473 
  PCSK4 MUTATED PCSK4 WILD-TYPE 
              8             473 
[1] "FOLH1 MUTATION ANALYSIS"
[1] 3
  FOLH1 MUTATED FOLH1 WILD-TYPE 
             28             453 
  FOLH1 MUTATED FOLH1 WILD-TYPE 
             28             453 
[1] "ERLIN2 MUTATION ANALYSIS"
[1] 3
  ERLIN2 MUTATED ERLIN2 WILD-TYPE 
               6              475 
  ERLIN2 MUTATED ERLIN2 WILD-TYPE 
               6              475 
[1] "SBSN MUTATION ANALYSIS"
[1] 3
  SBSN MUTATED SBSN WILD-TYPE 
            12            469 
  SBSN MUTATED SBSN WILD-TYPE 
            12            469 
[1] "NID2 MUTATION ANALYSIS"
[1] 3
  NID2 MUTATED NID2 WILD-TYPE 
            33            448 
  NID2 MUTATED NID2 WILD-TYPE 
            33            448 
[1] "SAMD7 MUTATION ANALYSIS"
[1] 3
  SAMD7 MUTATED SAMD7 WILD-TYPE 
             11             470 
  SAMD7 MUTATED SAMD7 WILD-TYPE 
             11             470 
[1] "SERPINB5 MUTATION ANALYSIS"
[1] 3
  SERPINB5 MUTATED SERPINB5 WILD-TYPE 
                 9                472 
  SERPINB5 MUTATED SERPINB5 WILD-TYPE 
                 9                472 
[1] "SLC39A6 MUTATION ANALYSIS"
[1] 3
  SLC39A6 MUTATED SLC39A6 WILD-TYPE 
               14               467 
  SLC39A6 MUTATED SLC39A6 WILD-TYPE 
               14               467 
[1] "PHKA1 MUTATION ANALYSIS"
[1] 3
  PHKA1 MUTATED PHKA1 WILD-TYPE 
             12             469 
  PHKA1 MUTATED PHKA1 WILD-TYPE 
             12             469 
[1] "KRT26 MUTATION ANALYSIS"
[1] 3
  KRT26 MUTATED KRT26 WILD-TYPE 
              9             472 
  KRT26 MUTATED KRT26 WILD-TYPE 
              9             472 
[1] "CALCRL MUTATION ANALYSIS"
[1] 3
  CALCRL MUTATED CALCRL WILD-TYPE 
              13              468 
  CALCRL MUTATED CALCRL WILD-TYPE 
              13              468 
[1] "STRN3 MUTATION ANALYSIS"
[1] 3
  STRN3 MUTATED STRN3 WILD-TYPE 
             10             471 
  STRN3 MUTATED STRN3 WILD-TYPE 
             10             471 
[1] "RPS16 MUTATION ANALYSIS"
[1] 3
  RPS16 MUTATED RPS16 WILD-TYPE 
              3             478 
  RPS16 MUTATED RPS16 WILD-TYPE 
              3             478 
[1] "NPR1 MUTATION ANALYSIS"
[1] 3
  NPR1 MUTATED NPR1 WILD-TYPE 
            14            467 
  NPR1 MUTATED NPR1 WILD-TYPE 
            14            467 
[1] "KARS MUTATION ANALYSIS"
[1] 3
  KARS MUTATED KARS WILD-TYPE 
             7            474 
  KARS MUTATED KARS WILD-TYPE 
             7            474 
[1] "FRMD6 MUTATION ANALYSIS"
[1] 3
  FRMD6 MUTATED FRMD6 WILD-TYPE 
             14             467 
  FRMD6 MUTATED FRMD6 WILD-TYPE 
             14             467 
[1] "TMC4 MUTATION ANALYSIS"
[1] 3
  TMC4 MUTATED TMC4 WILD-TYPE 
            10            471 
  TMC4 MUTATED TMC4 WILD-TYPE 
            10            471 
[1] "ARMC3 MUTATION ANALYSIS"
[1] 3
  ARMC3 MUTATED ARMC3 WILD-TYPE 
             22             459 
  ARMC3 MUTATED ARMC3 WILD-TYPE 
             22             459 
[1] "PIK3R4 MUTATION ANALYSIS"
[1] 3
  PIK3R4 MUTATED PIK3R4 WILD-TYPE 
              20              461 
  PIK3R4 MUTATED PIK3R4 WILD-TYPE 
              20              461 
[1] "ESRP1 MUTATION ANALYSIS"
[1] 3
  ESRP1 MUTATED ESRP1 WILD-TYPE 
              8             473 
  ESRP1 MUTATED ESRP1 WILD-TYPE 
              8             473 
[1] "GRN MUTATION ANALYSIS"
[1] 3
  GRN MUTATED GRN WILD-TYPE 
            6           475 
  GRN MUTATED GRN WILD-TYPE 
            6           475 
[1] "CYTH4 MUTATION ANALYSIS"
[1] 3
  CYTH4 MUTATED CYTH4 WILD-TYPE 
              5             476 
  CYTH4 MUTATED CYTH4 WILD-TYPE 
              5             476 
[1] "SEC23IP MUTATION ANALYSIS"
[1] 3
  SEC23IP MUTATED SEC23IP WILD-TYPE 
                9               472 
  SEC23IP MUTATED SEC23IP WILD-TYPE 
                9               472 
[1] "LARP4 MUTATION ANALYSIS"
[1] 3
  LARP4 MUTATED LARP4 WILD-TYPE 
              9             472 
  LARP4 MUTATED LARP4 WILD-TYPE 
              9             472 
[1] "SLAMF8 MUTATION ANALYSIS"
[1] 3
  SLAMF8 MUTATED SLAMF8 WILD-TYPE 
               9              472 
  SLAMF8 MUTATED SLAMF8 WILD-TYPE 
               9              472 
[1] "IGDCC4 MUTATION ANALYSIS"
[1] 3
  IGDCC4 MUTATED IGDCC4 WILD-TYPE 
              24              457 
  IGDCC4 MUTATED IGDCC4 WILD-TYPE 
              24              457 
[1] "NPBWR2 MUTATION ANALYSIS"
[1] 3
  NPBWR2 MUTATED NPBWR2 WILD-TYPE 
               8              473 
  NPBWR2 MUTATED NPBWR2 WILD-TYPE 
               8              473 
[1] "FLRT3 MUTATION ANALYSIS"
[1] 3
  FLRT3 MUTATED FLRT3 WILD-TYPE 
              8             473 
  FLRT3 MUTATED FLRT3 WILD-TYPE 
              8             473 
[1] "MYO1G MUTATION ANALYSIS"
[1] 3
  MYO1G MUTATED MYO1G WILD-TYPE 
             12             469 
  MYO1G MUTATED MYO1G WILD-TYPE 
             12             469 
[1] "PUM2 MUTATION ANALYSIS"
[1] 3
  PUM2 MUTATED PUM2 WILD-TYPE 
            12            469 
  PUM2 MUTATED PUM2 WILD-TYPE 
            12            469 
[1] "C11ORF63 MUTATION ANALYSIS"
[1] 3
  C11ORF63 MUTATED C11ORF63 WILD-TYPE 
                18                463 
  C11ORF63 MUTATED C11ORF63 WILD-TYPE 
                18                463 
[1] "IPP MUTATION ANALYSIS"
[1] 3
  IPP MUTATED IPP WILD-TYPE 
            5           476 
  IPP MUTATED IPP WILD-TYPE 
            5           476 
[1] "XRCC6 MUTATION ANALYSIS"
[1] 3
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              8             473 
  XRCC6 MUTATED XRCC6 WILD-TYPE 
              8             473 
[1] "RHEB MUTATION ANALYSIS"
[1] 3
  RHEB MUTATED RHEB WILD-TYPE 
             4            477 
  RHEB MUTATED RHEB WILD-TYPE 
             4            477 
[1] "TSLP MUTATION ANALYSIS"
[1] 3
  TSLP MUTATED TSLP WILD-TYPE 
             7            474 
  TSLP MUTATED TSLP WILD-TYPE 
             7            474 
[1] "LIPG MUTATION ANALYSIS"
[1] 3
  LIPG MUTATED LIPG WILD-TYPE 
             9            472 
  LIPG MUTATED LIPG WILD-TYPE 
             9            472 
[1] "SOS1 MUTATION ANALYSIS"
[1] 3
  SOS1 MUTATED SOS1 WILD-TYPE 
            14            467 
  SOS1 MUTATED SOS1 WILD-TYPE 
            14            467 
[1] "KCTD1 MUTATION ANALYSIS"
[1] 3
  KCTD1 MUTATED KCTD1 WILD-TYPE 
              6             475 
  KCTD1 MUTATED KCTD1 WILD-TYPE 
              6             475 
[1] "IRF2BP2 MUTATION ANALYSIS"
[1] 3
  IRF2BP2 MUTATED IRF2BP2 WILD-TYPE 
                7               474 
  IRF2BP2 MUTATED IRF2BP2 WILD-TYPE 
                7               474 
[1] "SUN1 MUTATION ANALYSIS"
[1] 3
  SUN1 MUTATED SUN1 WILD-TYPE 
            15            466 
  SUN1 MUTATED SUN1 WILD-TYPE 
            15            466 
[1] "SEMA6C MUTATION ANALYSIS"
[1] 3
  SEMA6C MUTATED SEMA6C WILD-TYPE 
               7              474 
  SEMA6C MUTATED SEMA6C WILD-TYPE 
               7              474 
[1] "KLF5 MUTATION ANALYSIS"
[1] 3
  KLF5 MUTATED KLF5 WILD-TYPE 
             4            477 
  KLF5 MUTATED KLF5 WILD-TYPE 
             4            477 
[1] "RFTN2 MUTATION ANALYSIS"
[1] 3
  RFTN2 MUTATED RFTN2 WILD-TYPE 
             11             470 
  RFTN2 MUTATED RFTN2 WILD-TYPE 
             11             470 
[1] "ZNF81 MUTATION ANALYSIS"
[1] 3
  ZNF81 MUTATED ZNF81 WILD-TYPE 
              8             473 
  ZNF81 MUTATED ZNF81 WILD-TYPE 
              8             473 
[1] "FER MUTATION ANALYSIS"
[1] 3
  FER MUTATED FER WILD-TYPE 
           13           468 
  FER MUTATED FER WILD-TYPE 
           13           468 
[1] "NPHS1 MUTATION ANALYSIS"
[1] 3
  NPHS1 MUTATED NPHS1 WILD-TYPE 
             24             457 
  NPHS1 MUTATED NPHS1 WILD-TYPE 
             24             457 
[1] "KDR MUTATION ANALYSIS"
[1] 3
  KDR MUTATED KDR WILD-TYPE 
           43           438 
  KDR MUTATED KDR WILD-TYPE 
           43           438 
[1] "LDB2 MUTATION ANALYSIS"
[1] 3
  LDB2 MUTATED LDB2 WILD-TYPE 
            19            462 
  LDB2 MUTATED LDB2 WILD-TYPE 
            19            462 
[1] "FIBP MUTATION ANALYSIS"
[1] 3
  FIBP MUTATED FIBP WILD-TYPE 
             5            476 
  FIBP MUTATED FIBP WILD-TYPE 
             5            476 
[1] "MSH2 MUTATION ANALYSIS"
[1] 3
  MSH2 MUTATED MSH2 WILD-TYPE 
            11            470 
  MSH2 MUTATED MSH2 WILD-TYPE 
            11            470 
[1] "PARD3B MUTATION ANALYSIS"
[1] 3
  PARD3B MUTATED PARD3B WILD-TYPE 
              27              454 
  PARD3B MUTATED PARD3B WILD-TYPE 
              27              454 
[1] "LARS MUTATION ANALYSIS"
[1] 3
  LARS MUTATED LARS WILD-TYPE 
             8            473 
  LARS MUTATED LARS WILD-TYPE 
             8            473 
[1] "LCE2B MUTATION ANALYSIS"
[1] 3
  LCE2B MUTATED LCE2B WILD-TYPE 
              8             473 
  LCE2B MUTATED LCE2B WILD-TYPE 
              8             473 
[1] "NTHL1 MUTATION ANALYSIS"
[1] 3
  NTHL1 MUTATED NTHL1 WILD-TYPE 
              6             475 
  NTHL1 MUTATED NTHL1 WILD-TYPE 
              6             475 
[1] "UBAP2 MUTATION ANALYSIS"
[1] 3
  UBAP2 MUTATED UBAP2 WILD-TYPE 
             11             470 
  UBAP2 MUTATED UBAP2 WILD-TYPE 
             11             470 
[1] "MATR3 MUTATION ANALYSIS"
[1] 3
  MATR3 MUTATED MATR3 WILD-TYPE 
              7             474 
  MATR3 MUTATED MATR3 WILD-TYPE 
              7             474 
[1] "CD34 MUTATION ANALYSIS"
[1] 3
  CD34 MUTATED CD34 WILD-TYPE 
            10            471 
  CD34 MUTATED CD34 WILD-TYPE 
            10            471 
[1] "BRD9 MUTATION ANALYSIS"
[1] 3
  BRD9 MUTATED BRD9 WILD-TYPE 
             5            476 
  BRD9 MUTATED BRD9 WILD-TYPE 
             5            476 
[1] "BTAF1 MUTATION ANALYSIS"
[1] 3
  BTAF1 MUTATED BTAF1 WILD-TYPE 
             23             458 
  BTAF1 MUTATED BTAF1 WILD-TYPE 
             23             458 
[1] "RGS20 MUTATION ANALYSIS"
[1] 3
  RGS20 MUTATED RGS20 WILD-TYPE 
              7             474 
  RGS20 MUTATED RGS20 WILD-TYPE 
              7             474 
[1] "ITLN1 MUTATION ANALYSIS"
[1] 3
  ITLN1 MUTATED ITLN1 WILD-TYPE 
              9             472 
  ITLN1 MUTATED ITLN1 WILD-TYPE 
              9             472 
[1] "FIGNL1 MUTATION ANALYSIS"
[1] 3
  FIGNL1 MUTATED FIGNL1 WILD-TYPE 
              11              470 
  FIGNL1 MUTATED FIGNL1 WILD-TYPE 
              11              470 
[1] "ABCF3 MUTATION ANALYSIS"
[1] 3
  ABCF3 MUTATED ABCF3 WILD-TYPE 
              8             473 
  ABCF3 MUTATED ABCF3 WILD-TYPE 
              8             473 
[1] "KSR1 MUTATION ANALYSIS"
[1] 3
  KSR1 MUTATED KSR1 WILD-TYPE 
            12            469 
  KSR1 MUTATED KSR1 WILD-TYPE 
            12            469 
[1] "ARAP3 MUTATION ANALYSIS"
[1] 3
  ARAP3 MUTATED ARAP3 WILD-TYPE 
             17             464 
  ARAP3 MUTATED ARAP3 WILD-TYPE 
             17             464 
[1] "IPO9 MUTATION ANALYSIS"
[1] 3
  IPO9 MUTATED IPO9 WILD-TYPE 
             9            472 
  IPO9 MUTATED IPO9 WILD-TYPE 
             9            472 
[1] "SLC26A4 MUTATION ANALYSIS"
[1] 3
  SLC26A4 MUTATED SLC26A4 WILD-TYPE 
               11               470 
  SLC26A4 MUTATED SLC26A4 WILD-TYPE 
               11               470 
[1] "MOCOS MUTATION ANALYSIS"
[1] 3
  MOCOS MUTATED MOCOS WILD-TYPE 
              9             472 
  MOCOS MUTATED MOCOS WILD-TYPE 
              9             472 
[1] "MOGAT2 MUTATION ANALYSIS"
[1] 3
  MOGAT2 MUTATED MOGAT2 WILD-TYPE 
               8              473 
  MOGAT2 MUTATED MOGAT2 WILD-TYPE 
               8              473 
[1] "ZKSCAN5 MUTATION ANALYSIS"
[1] 3
  ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE 
                7               474 
  ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE 
                7               474 
[1] "GPR150 MUTATION ANALYSIS"
[1] 3
  GPR150 MUTATED GPR150 WILD-TYPE 
               3              478 
  GPR150 MUTATED GPR150 WILD-TYPE 
               3              478 
[1] "MGAT5B MUTATION ANALYSIS"
[1] 3
  MGAT5B MUTATED MGAT5B WILD-TYPE 
              19              462 
  MGAT5B MUTATED MGAT5B WILD-TYPE 
              19              462 
[1] "AGXT MUTATION ANALYSIS"
[1] 3
  AGXT MUTATED AGXT WILD-TYPE 
             8            473 
  AGXT MUTATED AGXT WILD-TYPE 
             8            473 
[1] "PBRM1 MUTATION ANALYSIS"
[1] 3
  PBRM1 MUTATED PBRM1 WILD-TYPE 
              8             473 
  PBRM1 MUTATED PBRM1 WILD-TYPE 
              8             473 
[1] "CREB5 MUTATION ANALYSIS"
[1] 3
  CREB5 MUTATED CREB5 WILD-TYPE 
             13             468 
  CREB5 MUTATED CREB5 WILD-TYPE 
             13             468 
[1] "CD300E MUTATION ANALYSIS"
[1] 3
  CD300E MUTATED CD300E WILD-TYPE 
               7              474 
  CD300E MUTATED CD300E WILD-TYPE 
               7              474 
[1] "ZNF623 MUTATION ANALYSIS"
[1] 3
  ZNF623 MUTATED ZNF623 WILD-TYPE 
               9              472 
  ZNF623 MUTATED ZNF623 WILD-TYPE 
               9              472 
[1] "CYSLTR2 MUTATION ANALYSIS"
[1] 3
  CYSLTR2 MUTATED CYSLTR2 WILD-TYPE 
                9               472 
  CYSLTR2 MUTATED CYSLTR2 WILD-TYPE 
                9               472 
[1] "BCL9L MUTATION ANALYSIS"
[1] 3
  BCL9L MUTATED BCL9L WILD-TYPE 
             17             464 
  BCL9L MUTATED BCL9L WILD-TYPE 
             17             464 
[1] "ZFP36L1 MUTATION ANALYSIS"
[1] 3
  ZFP36L1 MUTATED ZFP36L1 WILD-TYPE 
               11               470 
  ZFP36L1 MUTATED ZFP36L1 WILD-TYPE 
               11               470 
[1] "PALM MUTATION ANALYSIS"
[1] 3
  PALM MUTATED PALM WILD-TYPE 
             6            475 
  PALM MUTATED PALM WILD-TYPE 
             6            475 
[1] "CSNK1A1L MUTATION ANALYSIS"
[1] 3
  CSNK1A1L MUTATED CSNK1A1L WILD-TYPE 
                13                468 
  CSNK1A1L MUTATED CSNK1A1L WILD-TYPE 
                13                468 
[1] "SCML4 MUTATION ANALYSIS"
[1] 3
  SCML4 MUTATED SCML4 WILD-TYPE 
             11             470 
  SCML4 MUTATED SCML4 WILD-TYPE 
             11             470 
[1] "SLC11A1 MUTATION ANALYSIS"
[1] 3
  SLC11A1 MUTATED SLC11A1 WILD-TYPE 
                7               474 
  SLC11A1 MUTATED SLC11A1 WILD-TYPE 
                7               474 
[1] "MOGAT3 MUTATION ANALYSIS"
[1] 3
  MOGAT3 MUTATED MOGAT3 WILD-TYPE 
              10              471 
  MOGAT3 MUTATED MOGAT3 WILD-TYPE 
              10              471 
[1] "TULP4 MUTATION ANALYSIS"
[1] 3
  TULP4 MUTATED TULP4 WILD-TYPE 
             13             468 
  TULP4 MUTATED TULP4 WILD-TYPE 
             13             468 
[1] "ASB5 MUTATION ANALYSIS"
[1] 3
  ASB5 MUTATED ASB5 WILD-TYPE 
            14            467 
  ASB5 MUTATED ASB5 WILD-TYPE 
            14            467 
[1] "TDRD6 MUTATION ANALYSIS"
[1] 3
  TDRD6 MUTATED TDRD6 WILD-TYPE 
             17             464 
  TDRD6 MUTATED TDRD6 WILD-TYPE 
             17             464 
[1] "COL12A1 MUTATION ANALYSIS"
[1] 3
  COL12A1 MUTATED COL12A1 WILD-TYPE 
               54               427 
  COL12A1 MUTATED COL12A1 WILD-TYPE 
               54               427 
[1] "SMOC1 MUTATION ANALYSIS"
[1] 3
  SMOC1 MUTATED SMOC1 WILD-TYPE 
             12             469 
  SMOC1 MUTATED SMOC1 WILD-TYPE 
             12             469 
[1] "HSD11B1 MUTATION ANALYSIS"
[1] 3
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                7               474 
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                7               474 
[1] "COL7A1 MUTATION ANALYSIS"
[1] 3
  COL7A1 MUTATED COL7A1 WILD-TYPE 
              33              448 
  COL7A1 MUTATED COL7A1 WILD-TYPE 
              33              448 
[1] "C1ORF105 MUTATION ANALYSIS"
[1] 3
  C1ORF105 MUTATED C1ORF105 WILD-TYPE 
                 4                477 
  C1ORF105 MUTATED C1ORF105 WILD-TYPE 
                 4                477 
[1] "NDUFB11 MUTATION ANALYSIS"
[1] 3
  NDUFB11 MUTATED NDUFB11 WILD-TYPE 
                6               475 
  NDUFB11 MUTATED NDUFB11 WILD-TYPE 
                6               475 
[1] "CHM MUTATION ANALYSIS"
[1] 3
  CHM MUTATED CHM WILD-TYPE 
           16           465 
  CHM MUTATED CHM WILD-TYPE 
           16           465 
[1] "TFDP1 MUTATION ANALYSIS"
[1] 3
  TFDP1 MUTATED TFDP1 WILD-TYPE 
              8             473 
  TFDP1 MUTATED TFDP1 WILD-TYPE 
              8             473 
[1] "NLGN2 MUTATION ANALYSIS"
[1] 3
  NLGN2 MUTATED NLGN2 WILD-TYPE 
              9             472 
  NLGN2 MUTATED NLGN2 WILD-TYPE 
              9             472 
[1] "PLEKHG5 MUTATION ANALYSIS"
[1] 3
  PLEKHG5 MUTATED PLEKHG5 WILD-TYPE 
                7               474 
  PLEKHG5 MUTATED PLEKHG5 WILD-TYPE 
                7               474 
[1] "OR5P3 MUTATION ANALYSIS"
[1] 3
  OR5P3 MUTATED OR5P3 WILD-TYPE 
              3             478 
  OR5P3 MUTATED OR5P3 WILD-TYPE 
              3             478 
[1] "CHD5 MUTATION ANALYSIS"
[1] 3
  CHD5 MUTATED CHD5 WILD-TYPE 
            30            451 
  CHD5 MUTATED CHD5 WILD-TYPE 
            30            451 
[1] "FBXO34 MUTATION ANALYSIS"
[1] 3
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               6              475 
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               6              475 
[1] "TXLNB MUTATION ANALYSIS"
[1] 3
  TXLNB MUTATED TXLNB WILD-TYPE 
             17             464 
  TXLNB MUTATED TXLNB WILD-TYPE 
             17             464 
[1] "HSPA1L MUTATION ANALYSIS"
[1] 3
  HSPA1L MUTATED HSPA1L WILD-TYPE 
              10              471 
  HSPA1L MUTATED HSPA1L WILD-TYPE 
              10              471 
[1] "NUMA1 MUTATION ANALYSIS"
[1] 3
  NUMA1 MUTATED NUMA1 WILD-TYPE 
             17             464 
  NUMA1 MUTATED NUMA1 WILD-TYPE 
             17             464 
[1] "MEFV MUTATION ANALYSIS"
[1] 3
  MEFV MUTATED MEFV WILD-TYPE 
            17            464 
  MEFV MUTATED MEFV WILD-TYPE 
            17            464 
[1] "GAN MUTATION ANALYSIS"
[1] 3
  GAN MUTATED GAN WILD-TYPE 
           10           471 
  GAN MUTATED GAN WILD-TYPE 
           10           471 
[1] "SQSTM1 MUTATION ANALYSIS"
[1] 3
  SQSTM1 MUTATED SQSTM1 WILD-TYPE 
               6              475 
  SQSTM1 MUTATED SQSTM1 WILD-TYPE 
               6              475 
[1] "DSN1 MUTATION ANALYSIS"
[1] 3
  DSN1 MUTATED DSN1 WILD-TYPE 
             6            475 
  DSN1 MUTATED DSN1 WILD-TYPE 
             6            475 
[1] "NAAA MUTATION ANALYSIS"
[1] 3
  NAAA MUTATED NAAA WILD-TYPE 
             3            478 
  NAAA MUTATED NAAA WILD-TYPE 
             3            478 
[1] "GART MUTATION ANALYSIS"
[1] 3
  GART MUTATED GART WILD-TYPE 
             6            475 
  GART MUTATED GART WILD-TYPE 
             6            475 
[1] "TARBP1 MUTATION ANALYSIS"
[1] 3
  TARBP1 MUTATED TARBP1 WILD-TYPE 
              14              467 
  TARBP1 MUTATED TARBP1 WILD-TYPE 
              14              467 
[1] "HLA-DQA2 MUTATION ANALYSIS"
[1] 3
  HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE 
                 3                478 
  HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE 
                 3                478 
[1] "AHDC1 MUTATION ANALYSIS"
[1] 3
  AHDC1 MUTATED AHDC1 WILD-TYPE 
             10             471 
  AHDC1 MUTATED AHDC1 WILD-TYPE 
             10             471 
[1] "ARHGEF12 MUTATION ANALYSIS"
[1] 3
  ARHGEF12 MUTATED ARHGEF12 WILD-TYPE 
                21                460 
  ARHGEF12 MUTATED ARHGEF12 WILD-TYPE 
                21                460 
[1] "UHRF1BP1L MUTATION ANALYSIS"
[1] 3
  UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE 
                 16                 465 
  UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE 
                 16                 465 
[1] "HERC3 MUTATION ANALYSIS"
[1] 3
  HERC3 MUTATED HERC3 WILD-TYPE 
              8             473 
  HERC3 MUTATED HERC3 WILD-TYPE 
              8             473 
[1] "GALNT14 MUTATION ANALYSIS"
[1] 3
  GALNT14 MUTATED GALNT14 WILD-TYPE 
               20               461 
  GALNT14 MUTATED GALNT14 WILD-TYPE 
               20               461 
[1] "FLT4 MUTATION ANALYSIS"
[1] 3
  FLT4 MUTATED FLT4 WILD-TYPE 
            18            463 
  FLT4 MUTATED FLT4 WILD-TYPE 
            18            463 
[1] "ACBD5 MUTATION ANALYSIS"
[1] 3
  ACBD5 MUTATED ACBD5 WILD-TYPE 
             11             470 
  ACBD5 MUTATED ACBD5 WILD-TYPE 
             11             470 
[1] "CARD6 MUTATION ANALYSIS"
[1] 3
  CARD6 MUTATED CARD6 WILD-TYPE 
             14             467 
  CARD6 MUTATED CARD6 WILD-TYPE 
             14             467 
[1] "ANKRD44 MUTATION ANALYSIS"
[1] 3
  ANKRD44 MUTATED ANKRD44 WILD-TYPE 
               18               463 
  ANKRD44 MUTATED ANKRD44 WILD-TYPE 
               18               463 
[1] "DPEP2 MUTATION ANALYSIS"
[1] 3
  DPEP2 MUTATED DPEP2 WILD-TYPE 
              7             474 
  DPEP2 MUTATED DPEP2 WILD-TYPE 
              7             474 
[1] "TCEAL5 MUTATION ANALYSIS"
[1] 3
  TCEAL5 MUTATED TCEAL5 WILD-TYPE 
              13              468 
  TCEAL5 MUTATED TCEAL5 WILD-TYPE 
              13              468 
[1] "PTPRH MUTATION ANALYSIS"
[1] 3
  PTPRH MUTATED PTPRH WILD-TYPE 
             22             459 
  PTPRH MUTATED PTPRH WILD-TYPE 
             22             459 
[1] "LMTK3 MUTATION ANALYSIS"
[1] 3
  LMTK3 MUTATED LMTK3 WILD-TYPE 
              8             473 
  LMTK3 MUTATED LMTK3 WILD-TYPE 
              8             473 
[1] "ADAR MUTATION ANALYSIS"
[1] 3
  ADAR MUTATED ADAR WILD-TYPE 
             9            472 
  ADAR MUTATED ADAR WILD-TYPE 
             9            472 
[1] "CLCN5 MUTATION ANALYSIS"
[1] 3
  CLCN5 MUTATED CLCN5 WILD-TYPE 
              9             472 
  CLCN5 MUTATED CLCN5 WILD-TYPE 
              9             472 
[1] "MECP2 MUTATION ANALYSIS"
[1] 3
  MECP2 MUTATED MECP2 WILD-TYPE 
              9             472 
  MECP2 MUTATED MECP2 WILD-TYPE 
              9             472 
[1] "IL22RA2 MUTATION ANALYSIS"
[1] 3
  IL22RA2 MUTATED IL22RA2 WILD-TYPE 
                6               475 
  IL22RA2 MUTATED IL22RA2 WILD-TYPE 
                6               475 
[1] "MYO1H MUTATION ANALYSIS"
[1] 3
  MYO1H MUTATED MYO1H WILD-TYPE 
             12             469 
  MYO1H MUTATED MYO1H WILD-TYPE 
             12             469 
[1] "SERGEF MUTATION ANALYSIS"
[1] 3
  SERGEF MUTATED SERGEF WILD-TYPE 
               9              472 
  SERGEF MUTATED SERGEF WILD-TYPE 
               9              472 
[1] "TRIP13 MUTATION ANALYSIS"
[1] 3
  TRIP13 MUTATED TRIP13 WILD-TYPE 
              11              470 
  TRIP13 MUTATED TRIP13 WILD-TYPE 
              11              470 
[1] "GPR174 MUTATION ANALYSIS"
[1] 3
  GPR174 MUTATED GPR174 WILD-TYPE 
              16              465 
  GPR174 MUTATED GPR174 WILD-TYPE 
              16              465 
[1] "VARS MUTATION ANALYSIS"
[1] 3
  VARS MUTATED VARS WILD-TYPE 
             9            472 
  VARS MUTATED VARS WILD-TYPE 
             9            472 
[1] "CSNK1E MUTATION ANALYSIS"
[1] 3
  CSNK1E MUTATED CSNK1E WILD-TYPE 
               6              475 
  CSNK1E MUTATED CSNK1E WILD-TYPE 
               6              475 
[1] "ANKRD7 MUTATION ANALYSIS"
[1] 3
  ANKRD7 MUTATED ANKRD7 WILD-TYPE 
              10              471 
  ANKRD7 MUTATED ANKRD7 WILD-TYPE 
              10              471 
[1] "SLC34A1 MUTATION ANALYSIS"
[1] 3
  SLC34A1 MUTATED SLC34A1 WILD-TYPE 
               10               471 
  SLC34A1 MUTATED SLC34A1 WILD-TYPE 
               10               471 
[1] "MSN MUTATION ANALYSIS"
[1] 3
  MSN MUTATED MSN WILD-TYPE 
            8           473 
  MSN MUTATED MSN WILD-TYPE 
            8           473 
[1] "FXYD5 MUTATION ANALYSIS"
[1] 3
  FXYD5 MUTATED FXYD5 WILD-TYPE 
              6             475 
  FXYD5 MUTATED FXYD5 WILD-TYPE 
              6             475 
[1] "NXF5 MUTATION ANALYSIS"
[1] 3
  NXF5 MUTATED NXF5 WILD-TYPE 
            13            468 
  NXF5 MUTATED NXF5 WILD-TYPE 
            13            468 
[1] "CDK16 MUTATION ANALYSIS"
[1] 3
  CDK16 MUTATED CDK16 WILD-TYPE 
              5             476 
  CDK16 MUTATED CDK16 WILD-TYPE 
              5             476 
[1] "COL19A1 MUTATION ANALYSIS"
[1] 3
  COL19A1 MUTATED COL19A1 WILD-TYPE 
               39               442 
  COL19A1 MUTATED COL19A1 WILD-TYPE 
               39               442 
[1] "PTPRN MUTATION ANALYSIS"
[1] 3
  PTPRN MUTATED PTPRN WILD-TYPE 
             18             463 
  PTPRN MUTATED PTPRN WILD-TYPE 
             18             463 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             12             469 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             12             469 
[1] "SYTL1 MUTATION ANALYSIS"
[1] 3
  SYTL1 MUTATED SYTL1 WILD-TYPE 
              5             476 
  SYTL1 MUTATED SYTL1 WILD-TYPE 
              5             476 
[1] "PIK3C2B MUTATION ANALYSIS"
[1] 3
  PIK3C2B MUTATED PIK3C2B WILD-TYPE 
               19               462 
  PIK3C2B MUTATED PIK3C2B WILD-TYPE 
               19               462 
[1] "FTSJ1 MUTATION ANALYSIS"
[1] 3
  FTSJ1 MUTATED FTSJ1 WILD-TYPE 
              7             474 
  FTSJ1 MUTATED FTSJ1 WILD-TYPE 
              7             474 
[1] "IFNA6 MUTATION ANALYSIS"
[1] 3
  IFNA6 MUTATED IFNA6 WILD-TYPE 
              6             475 
  IFNA6 MUTATED IFNA6 WILD-TYPE 
              6             475 
[1] "MME MUTATION ANALYSIS"
[1] 3
  MME MUTATED MME WILD-TYPE 
           14           467 
  MME MUTATED MME WILD-TYPE 
           14           467 
[1] "HYDIN MUTATION ANALYSIS"
[1] 3
  HYDIN MUTATED HYDIN WILD-TYPE 
             49             432 
  HYDIN MUTATED HYDIN WILD-TYPE 
             49             432 
[1] "ILF3 MUTATION ANALYSIS"
[1] 3
  ILF3 MUTATED ILF3 WILD-TYPE 
             5            476 
  ILF3 MUTATED ILF3 WILD-TYPE 
             5            476 
[1] "METTL2B MUTATION ANALYSIS"
[1] 3
  METTL2B MUTATED METTL2B WILD-TYPE 
                4               477 
  METTL2B MUTATED METTL2B WILD-TYPE 
                4               477 
[1] "ZNF511 MUTATION ANALYSIS"
[1] 3
  ZNF511 MUTATED ZNF511 WILD-TYPE 
               9              472 
  ZNF511 MUTATED ZNF511 WILD-TYPE 
               9              472 
[1] "U2AF1L4 MUTATION ANALYSIS"
[1] 3
  U2AF1L4 MUTATED U2AF1L4 WILD-TYPE 
                5               476 
  U2AF1L4 MUTATED U2AF1L4 WILD-TYPE 
                5               476 
[1] "HTR3D MUTATION ANALYSIS"
[1] 3
  HTR3D MUTATED HTR3D WILD-TYPE 
              4             477 
  HTR3D MUTATED HTR3D WILD-TYPE 
              4             477 
[1] "EIF4E2 MUTATION ANALYSIS"
[1] 3
  EIF4E2 MUTATED EIF4E2 WILD-TYPE 
               4              477 
  EIF4E2 MUTATED EIF4E2 WILD-TYPE 
               4              477 
[1] "GAL3ST4 MUTATION ANALYSIS"
[1] 3
  GAL3ST4 MUTATED GAL3ST4 WILD-TYPE 
               11               470 
  GAL3ST4 MUTATED GAL3ST4 WILD-TYPE 
               11               470 
[1] "MBD1 MUTATION ANALYSIS"
[1] 3
  MBD1 MUTATED MBD1 WILD-TYPE 
            10            471 
  MBD1 MUTATED MBD1 WILD-TYPE 
            10            471 
[1] "WAC MUTATION ANALYSIS"
[1] 3
  WAC MUTATED WAC WILD-TYPE 
           11           470 
  WAC MUTATED WAC WILD-TYPE 
           11           470 
[1] "PGBD1 MUTATION ANALYSIS"
[1] 3
  PGBD1 MUTATED PGBD1 WILD-TYPE 
             17             464 
  PGBD1 MUTATED PGBD1 WILD-TYPE 
             17             464 
[1] "GRHL2 MUTATION ANALYSIS"
[1] 3
  GRHL2 MUTATED GRHL2 WILD-TYPE 
              9             472 
  GRHL2 MUTATED GRHL2 WILD-TYPE 
              9             472 
[1] "TARS2 MUTATION ANALYSIS"
[1] 3
  TARS2 MUTATED TARS2 WILD-TYPE 
             10             471 
  TARS2 MUTATED TARS2 WILD-TYPE 
             10             471 
[1] "ARHGEF10L MUTATION ANALYSIS"
[1] 3
  ARHGEF10L MUTATED ARHGEF10L WILD-TYPE 
                  8                 473 
  ARHGEF10L MUTATED ARHGEF10L WILD-TYPE 
                  8                 473 
[1] "EIF4G3 MUTATION ANALYSIS"
[1] 3
  EIF4G3 MUTATED EIF4G3 WILD-TYPE 
              13              468 
  EIF4G3 MUTATED EIF4G3 WILD-TYPE 
              13              468 
[1] "CRTC3 MUTATION ANALYSIS"
[1] 3
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              3             478 
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              3             478 
[1] "COL5A3 MUTATION ANALYSIS"
[1] 3
  COL5A3 MUTATED COL5A3 WILD-TYPE 
              20              461 
  COL5A3 MUTATED COL5A3 WILD-TYPE 
              20              461 
[1] "SF1 MUTATION ANALYSIS"
[1] 3
  SF1 MUTATED SF1 WILD-TYPE 
           12           469 
  SF1 MUTATED SF1 WILD-TYPE 
           12           469 
[1] "ZCCHC11 MUTATION ANALYSIS"
[1] 3
  ZCCHC11 MUTATED ZCCHC11 WILD-TYPE 
               12               469 
  ZCCHC11 MUTATED ZCCHC11 WILD-TYPE 
               12               469 
[1] "AIFM1 MUTATION ANALYSIS"
[1] 3
  AIFM1 MUTATED AIFM1 WILD-TYPE 
             13             468 
  AIFM1 MUTATED AIFM1 WILD-TYPE 
             13             468 
[1] "DCAF8 MUTATION ANALYSIS"
[1] 3
  DCAF8 MUTATED DCAF8 WILD-TYPE 
             12             469 
  DCAF8 MUTATED DCAF8 WILD-TYPE 
             12             469 
[1] "PPP2R2A MUTATION ANALYSIS"
[1] 3
  PPP2R2A MUTATED PPP2R2A WILD-TYPE 
                6               475 
  PPP2R2A MUTATED PPP2R2A WILD-TYPE 
                6               475 
[1] "IRF6 MUTATION ANALYSIS"
[1] 3
  IRF6 MUTATED IRF6 WILD-TYPE 
             9            472 
  IRF6 MUTATED IRF6 WILD-TYPE 
             9            472 
[1] "SIRPA MUTATION ANALYSIS"
[1] 3
  SIRPA MUTATED SIRPA WILD-TYPE 
             10             471 
  SIRPA MUTATED SIRPA WILD-TYPE 
             10             471 
[1] "ANGPT4 MUTATION ANALYSIS"
[1] 3
  ANGPT4 MUTATED ANGPT4 WILD-TYPE 
              11              470 
  ANGPT4 MUTATED ANGPT4 WILD-TYPE 
              11              470 
[1] "C12ORF71 MUTATION ANALYSIS"
[1] 3
  C12ORF71 MUTATED C12ORF71 WILD-TYPE 
                 8                473 
  C12ORF71 MUTATED C12ORF71 WILD-TYPE 
                 8                473 
[1] "CAPG MUTATION ANALYSIS"
[1] 3
  CAPG MUTATED CAPG WILD-TYPE 
             6            475 
  CAPG MUTATED CAPG WILD-TYPE 
             6            475 
[1] "PCDHGA6 MUTATION ANALYSIS"
[1] 3
  PCDHGA6 MUTATED PCDHGA6 WILD-TYPE 
               26               455 
  PCDHGA6 MUTATED PCDHGA6 WILD-TYPE 
               26               455 
[1] "ALPP MUTATION ANALYSIS"
[1] 3
  ALPP MUTATED ALPP WILD-TYPE 
            11            470 
  ALPP MUTATED ALPP WILD-TYPE 
            11            470 
[1] "ADCY6 MUTATION ANALYSIS"
[1] 3
  ADCY6 MUTATED ADCY6 WILD-TYPE 
              5             476 
  ADCY6 MUTATED ADCY6 WILD-TYPE 
              5             476 
[1] "GOLGA6B MUTATION ANALYSIS"
[1] 3
  GOLGA6B MUTATED GOLGA6B WILD-TYPE 
               10               471 
  GOLGA6B MUTATED GOLGA6B WILD-TYPE 
               10               471 
[1] "TMEM135 MUTATION ANALYSIS"
[1] 3
  TMEM135 MUTATED TMEM135 WILD-TYPE 
                9               472 
  TMEM135 MUTATED TMEM135 WILD-TYPE 
                9               472 
[1] "MSR1 MUTATION ANALYSIS"
[1] 3
  MSR1 MUTATED MSR1 WILD-TYPE 
             8            473 
  MSR1 MUTATED MSR1 WILD-TYPE 
             8            473 
[1] "ZNF768 MUTATION ANALYSIS"
[1] 3
  ZNF768 MUTATED ZNF768 WILD-TYPE 
               8              473 
  ZNF768 MUTATED ZNF768 WILD-TYPE 
               8              473 
[1] "UNC93A MUTATION ANALYSIS"
[1] 3
  UNC93A MUTATED UNC93A WILD-TYPE 
               9              472 
  UNC93A MUTATED UNC93A WILD-TYPE 
               9              472 
[1] "CACNA2D4 MUTATION ANALYSIS"
[1] 3
  CACNA2D4 MUTATED CACNA2D4 WILD-TYPE 
                24                457 
  CACNA2D4 MUTATED CACNA2D4 WILD-TYPE 
                24                457 
[1] "KIRREL MUTATION ANALYSIS"
[1] 3
  KIRREL MUTATED KIRREL WILD-TYPE 
              16              465 
  KIRREL MUTATED KIRREL WILD-TYPE 
              16              465 
[1] "ZBTB5 MUTATION ANALYSIS"
[1] 3
  ZBTB5 MUTATED ZBTB5 WILD-TYPE 
              3             478 
  ZBTB5 MUTATED ZBTB5 WILD-TYPE 
              3             478 
[1] "FANCM MUTATION ANALYSIS"
[1] 3
  FANCM MUTATED FANCM WILD-TYPE 
             31             450 
  FANCM MUTATED FANCM WILD-TYPE 
             31             450 
[1] "MYOF MUTATION ANALYSIS"
[1] 3
  MYOF MUTATED MYOF WILD-TYPE 
            17            464 
  MYOF MUTATED MYOF WILD-TYPE 
            17            464 
[1] "HNRNPA3 MUTATION ANALYSIS"
[1] 3
  HNRNPA3 MUTATED HNRNPA3 WILD-TYPE 
                7               474 
  HNRNPA3 MUTATED HNRNPA3 WILD-TYPE 
                7               474 
[1] "LRRFIP2 MUTATION ANALYSIS"
[1] 3
  LRRFIP2 MUTATED LRRFIP2 WILD-TYPE 
                7               474 
  LRRFIP2 MUTATED LRRFIP2 WILD-TYPE 
                7               474 
[1] "MYLK MUTATION ANALYSIS"
[1] 3
  MYLK MUTATED MYLK WILD-TYPE 
            21            460 
  MYLK MUTATED MYLK WILD-TYPE 
            21            460 
[1] "AMELX MUTATION ANALYSIS"
[1] 3
  AMELX MUTATED AMELX WILD-TYPE 
             10             471 
  AMELX MUTATED AMELX WILD-TYPE 
             10             471 
[1] "TMEM145 MUTATION ANALYSIS"
[1] 3
  TMEM145 MUTATED TMEM145 WILD-TYPE 
               11               470 
  TMEM145 MUTATED TMEM145 WILD-TYPE 
               11               470 
[1] "GCDH MUTATION ANALYSIS"
[1] 3
  GCDH MUTATED GCDH WILD-TYPE 
             4            477 
  GCDH MUTATED GCDH WILD-TYPE 
             4            477 
[1] "CACNA2D1 MUTATION ANALYSIS"
[1] 3
  CACNA2D1 MUTATED CACNA2D1 WILD-TYPE 
                40                441 
  CACNA2D1 MUTATED CACNA2D1 WILD-TYPE 
                40                441 
[1] "OR52E8 MUTATION ANALYSIS"
[1] 3
  OR52E8 MUTATED OR52E8 WILD-TYPE 
              15              466 
  OR52E8 MUTATED OR52E8 WILD-TYPE 
              15              466 
[1] "ITGA2B MUTATION ANALYSIS"
[1] 3
  ITGA2B MUTATED ITGA2B WILD-TYPE 
              12              469 
  ITGA2B MUTATED ITGA2B WILD-TYPE 
              12              469 
[1] "GKN1 MUTATION ANALYSIS"
[1] 3
  GKN1 MUTATED GKN1 WILD-TYPE 
             5            476 
  GKN1 MUTATED GKN1 WILD-TYPE 
             5            476 
[1] "ADAM11 MUTATION ANALYSIS"
[1] 3
  ADAM11 MUTATED ADAM11 WILD-TYPE 
              12              469 
  ADAM11 MUTATED ADAM11 WILD-TYPE 
              12              469 
[1] "FZD10 MUTATION ANALYSIS"
[1] 3
  FZD10 MUTATED FZD10 WILD-TYPE 
             28             453 
  FZD10 MUTATED FZD10 WILD-TYPE 
             28             453 
[1] "TEC MUTATION ANALYSIS"
[1] 3
  TEC MUTATED TEC WILD-TYPE 
           11           470 
  TEC MUTATED TEC WILD-TYPE 
           11           470 
[1] "MARCH6 MUTATION ANALYSIS"
[1] 3
  MARCH6 MUTATED MARCH6 WILD-TYPE 
              13              468 
  MARCH6 MUTATED MARCH6 WILD-TYPE 
              13              468 
[1] "AIFM3 MUTATION ANALYSIS"
[1] 3
  AIFM3 MUTATED AIFM3 WILD-TYPE 
              6             475 
  AIFM3 MUTATED AIFM3 WILD-TYPE 
              6             475 
[1] "MSRB2 MUTATION ANALYSIS"
[1] 3
  MSRB2 MUTATED MSRB2 WILD-TYPE 
              6             475 
  MSRB2 MUTATED MSRB2 WILD-TYPE 
              6             475 
[1] "KDM3B MUTATION ANALYSIS"
[1] 3
  KDM3B MUTATED KDM3B WILD-TYPE 
             14             467 
  KDM3B MUTATED KDM3B WILD-TYPE 
             14             467 
[1] "THPO MUTATION ANALYSIS"
[1] 3
  THPO MUTATED THPO WILD-TYPE 
             8            473 
  THPO MUTATED THPO WILD-TYPE 
             8            473 
[1] "CACNA1F MUTATION ANALYSIS"
[1] 3
  CACNA1F MUTATED CACNA1F WILD-TYPE 
               27               454 
  CACNA1F MUTATED CACNA1F WILD-TYPE 
               27               454 
[1] "SELE MUTATION ANALYSIS"
[1] 3
  SELE MUTATED SELE WILD-TYPE 
            12            469 
  SELE MUTATED SELE WILD-TYPE 
            12            469 
[1] "THY1 MUTATION ANALYSIS"
[1] 3
  THY1 MUTATED THY1 WILD-TYPE 
             5            476 
  THY1 MUTATED THY1 WILD-TYPE 
             5            476 
[1] "TTK MUTATION ANALYSIS"
[1] 3
  TTK MUTATED TTK WILD-TYPE 
           18           463 
  TTK MUTATED TTK WILD-TYPE 
           18           463 
[1] "GGNBP2 MUTATION ANALYSIS"
[1] 3
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
              11              470 
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
              11              470 
[1] "ADAM23 MUTATION ANALYSIS"
[1] 3
  ADAM23 MUTATED ADAM23 WILD-TYPE 
              27              454 
  ADAM23 MUTATED ADAM23 WILD-TYPE 
              27              454 
[1] "CHD8 MUTATION ANALYSIS"
[1] 3
  CHD8 MUTATED CHD8 WILD-TYPE 
            24            457 
  CHD8 MUTATED CHD8 WILD-TYPE 
            24            457 
[1] "TBC1D14 MUTATION ANALYSIS"
[1] 3
  TBC1D14 MUTATED TBC1D14 WILD-TYPE 
                8               473 
  TBC1D14 MUTATED TBC1D14 WILD-TYPE 
                8               473 
[1] "GPR128 MUTATION ANALYSIS"
[1] 3
  GPR128 MUTATED GPR128 WILD-TYPE 
              17              464 
  GPR128 MUTATED GPR128 WILD-TYPE 
              17              464 
[1] "RPL6 MUTATION ANALYSIS"
[1] 3
  RPL6 MUTATED RPL6 WILD-TYPE 
             3            478 
  RPL6 MUTATED RPL6 WILD-TYPE 
             3            478 
[1] "FRZB MUTATION ANALYSIS"
[1] 3
  FRZB MUTATED FRZB WILD-TYPE 
             9            472 
  FRZB MUTATED FRZB WILD-TYPE 
             9            472 
[1] "USP34 MUTATION ANALYSIS"
[1] 3
  USP34 MUTATED USP34 WILD-TYPE 
             23             458 
  USP34 MUTATED USP34 WILD-TYPE 
             23             458 
[1] "LCK MUTATION ANALYSIS"
[1] 3
  LCK MUTATED LCK WILD-TYPE 
           12           469 
  LCK MUTATED LCK WILD-TYPE 
           12           469 
[1] "FN1 MUTATION ANALYSIS"
[1] 3
  FN1 MUTATED FN1 WILD-TYPE 
           21           460 
  FN1 MUTATED FN1 WILD-TYPE 
           21           460 
[1] "RUFY2 MUTATION ANALYSIS"
[1] 3
  RUFY2 MUTATED RUFY2 WILD-TYPE 
              8             473 
  RUFY2 MUTATED RUFY2 WILD-TYPE 
              8             473 
[1] "YIPF1 MUTATION ANALYSIS"
[1] 3
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              3             478 
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              3             478 
[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 481 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=5,	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 481 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=3, binary=FALSE, numeric=FALSE
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=5, 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 = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        1      4      0      3
  TP53 WILD-TYPE      4      3      5      0
D1V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1              4
  CLUS_2            4              3
  CLUS_3            0              5
  CLUS_4            3              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
  TP53 MUTATED        1      4      3
  TP53 WILD-TYPE      6      5      1
D1V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            4              5
  CLUS_3            3              1
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       27     76     45    106
  TP53 WILD-TYPE     38    134     27     25
D1V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           27             38
  CLUS_2           76            134
  CLUS_3           45             27
  CLUS_4          106             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
  TP53 MUTATED       53     86     95
  TP53 WILD-TYPE     78     52     66
D1V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           53             78
  CLUS_2           86             52
  CLUS_3           95             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
  TP53 MUTATED       11     39     32
  TP53 WILD-TYPE     31     32     31
D1V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           11             31
  CLUS_2           39             32
  CLUS_3           32             31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       19      7     31     14     11
  TP53 WILD-TYPE     20     25     12     16     21
D1V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           19             20
  CLUS_2            7             25
  CLUS_3           31             12
  CLUS_4           14             16
  CLUS_5           11             21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       59    141     55
  TP53 WILD-TYPE     91     44     88
D1V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           59             91
  CLUS_2          141             44
  CLUS_3           55             88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TP53 MUTATED       19     80     73      6     19     26     32
  TP53 WILD-TYPE     53     29     17     38     30     20     36
D1V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           19             53
  CLUS_2           80             29
  CLUS_3           73             17
  CLUS_4            6             38
  CLUS_5           19             30
  CLUS_6           26             20
  CLUS_7           32             36
[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       63    141     49
  TP53 WILD-TYPE    112     70     41
D1V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           63            112
  CLUS_2          141             70
  CLUS_3           49             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
  TP53 MUTATED       24    101     59     69
  TP53 WILD-TYPE     46     85     72     20
D1V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           24             46
  CLUS_2          101             85
  CLUS_3           59             72
  CLUS_4           69             20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       76    103     50
  TP53 WILD-TYPE     65     79     39
D1V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           76             65
  CLUS_2          103             79
  CLUS_3           50             39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       32    152     45
  TP53 WILD-TYPE     62     81     40
D1V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           32             62
  CLUS_2          152             81
  CLUS_3           45             40
[1] 3 2
[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 = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        2      2      1      0
  KRAS WILD-TYPE      3      5      4      3
D2V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2              3
  CLUS_2            2              5
  CLUS_3            1              4
  CLUS_4            0              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
  KRAS MUTATED        2      2      1
  KRAS WILD-TYPE      5      7      3
D2V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2              5
  CLUS_2            2              7
  CLUS_3            1              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       30     70     24     26
  KRAS WILD-TYPE     35    140     48    105
D2V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           30             35
  CLUS_2           70            140
  CLUS_3           24             48
  CLUS_4           26            105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       33     35     67
  KRAS WILD-TYPE     98    103     94
D2V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           33             98
  CLUS_2           35            103
  CLUS_3           67             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       17     12     16
  KRAS WILD-TYPE     25     59     47
D2V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           17             25
  CLUS_2           12             59
  CLUS_3           16             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
  KRAS MUTATED        6     11      8      8     12
  KRAS WILD-TYPE     33     21     35     22     20
D2V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            6             33
  CLUS_2           11             21
  CLUS_3            8             35
  CLUS_4            8             22
  CLUS_5           12             20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       49     44     56
  KRAS WILD-TYPE    101    141     87
D2V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           49            101
  CLUS_2           44            141
  CLUS_3           56             87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRAS MUTATED       23     30      7     17     26     18     28
  KRAS WILD-TYPE     49     79     83     27     23     28     40
D2V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           23             49
  CLUS_2           30             79
  CLUS_3            7             83
  CLUS_4           17             27
  CLUS_5           26             23
  CLUS_6           18             28
  CLUS_7           28             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
  KRAS MUTATED       71     57     19
  KRAS WILD-TYPE    104    154     71
D2V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           71            104
  CLUS_2           57            154
  CLUS_3           19             71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       29     62     45     11
  KRAS WILD-TYPE     41    124     86     78
D2V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           29             41
  CLUS_2           62            124
  CLUS_3           45             86
  CLUS_4           11             78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       44     61     23
  KRAS WILD-TYPE     97    121     66
D2V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           44             97
  CLUS_2           61            121
  CLUS_3           23             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
  KRAS MUTATED       37     67     24
  KRAS WILD-TYPE     57    166     61
D2V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           37             57
  CLUS_2           67            166
  CLUS_3           24             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"

Clustering(3) Variable = KEAP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KEAP1 MUTATED        0      0      0      1
  KEAP1 WILD-TYPE      5      7      5      2
D3V1, multiclass
[1] "Remove cluster labels:" "KEAP1 MUTATED"         
clus
  KEAP1 MUTATED KEAP1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED        0      0      1
  KEAP1 WILD-TYPE      7      9      3
D3V2, multiclass
[1] "Remove cluster labels:" "KEAP1 MUTATED"         
clus
  KEAP1 MUTATED KEAP1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" "KEAP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KEAP1 MUTATED       17     32     24     11
  KEAP1 WILD-TYPE     48    178     48    120
D3V3, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            17              48
  CLUS_2            32             178
  CLUS_3            24              48
  CLUS_4            11             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED       12     47     15
  KEAP1 WILD-TYPE    119     91    146
D3V4, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            12             119
  CLUS_2            47              91
  CLUS_3            15             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED       15      5     15
  KEAP1 WILD-TYPE     27     66     48
D3V5, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            15              27
  CLUS_2             5              66
  CLUS_3            15              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
  KEAP1 MUTATED        3     13      4     10      5
  KEAP1 WILD-TYPE     36     19     39     20     27
D3V6, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2            13              19
  CLUS_3             4              39
  CLUS_4            10              20
  CLUS_5             5              27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED        9     23     51
  KEAP1 WILD-TYPE    141    162     92
D3V7, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             9             141
  CLUS_2            23             162
  CLUS_3            51              92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KEAP1 MUTATED        2      7     18     24      7     24      1
  KEAP1 WILD-TYPE     70    102     72     20     42     22     67
D3V8, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             7             102
  CLUS_3            18              72
  CLUS_4            24              20
  CLUS_5             7              42
  CLUS_6            24              22
  CLUS_7             1              67
[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
  KEAP1 MUTATED       31     41      9
  KEAP1 WILD-TYPE    144    170     81
D3V9, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            31             144
  CLUS_2            41             170
  CLUS_3             9              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
  KEAP1 MUTATED       20     26     11     24
  KEAP1 WILD-TYPE     50    160    120     65
D3V10, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            20              50
  CLUS_2            26             160
  CLUS_3            11             120
  CLUS_4            24              65
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED       25     37      8
  KEAP1 WILD-TYPE    116    145     81
D3V11, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            25             116
  CLUS_2            37             145
  CLUS_3             8              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
  KEAP1 MUTATED       16     50      4
  KEAP1 WILD-TYPE     78    183     81
D3V12, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            16              78
  CLUS_2            50             183
  CLUS_3             4              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"

Clustering(4) Variable = EGFR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        0      0      2      0
  EGFR WILD-TYPE      5      7      3      3
D4V1, multiclass
[1] "Remove cluster labels:" "EGFR MUTATED"          
clus
  EGFR MUTATED EGFR WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2665 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3773 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        2      0      0
  EGFR WILD-TYPE      5      9      4
D4V2, multiclass
[1] "Remove cluster labels:" "EGFR MUTATED"          
clus
  EGFR MUTATED EGFR WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2665 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" "EGFR WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3773 
"EGFR WILD-TYPE" "EGFR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        2     26      7     31
  EGFR WILD-TYPE     63    184     65    100
D4V3, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            2             63
  CLUS_2           26            184
  CLUS_3            7             65
  CLUS_4           31            100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED       22     17     19
  EGFR WILD-TYPE    109    121    142
D4V4, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           22            109
  CLUS_2           17            121
  CLUS_3           19            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        3     18      5
  EGFR WILD-TYPE     39     53     58
D4V5, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            3             39
  CLUS_2           18             53
  CLUS_3            5             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED       15      1      6      2      2
  EGFR WILD-TYPE     24     31     37     28     30
D4V6, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           15             24
  CLUS_2            1             31
  CLUS_3            6             37
  CLUS_4            2             28
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED       30     33      4
  EGFR WILD-TYPE    120    152    139
D4V7, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           30            120
  CLUS_2           33            152
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EGFR MUTATED       16     16     22      0      1      1     11
  EGFR WILD-TYPE     56     93     68     44     48     45     57
D4V8, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           16             56
  CLUS_2           16             93
  CLUS_3           22             68
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7           11             57
[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
  EGFR MUTATED       15     31     21
  EGFR WILD-TYPE    160    180     69
D4V9, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           15            160
  CLUS_2           31            180
  CLUS_3           21             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
  EGFR MUTATED        4     35     19      9
  EGFR WILD-TYPE     66    151    112     80
D4V10, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            4             66
  CLUS_2           35            151
  CLUS_3           19            112
  CLUS_4            9             80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED       18     20     19
  EGFR WILD-TYPE    123    162     70
D4V11, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           18            123
  CLUS_2           20            162
  CLUS_3           19             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        9     26     22
  EGFR WILD-TYPE     85    207     63
D4V12, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            9             85
  CLUS_2           26            207
  CLUS_3           22             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"

Clustering(5) Variable = RBM10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM10 MUTATED        0      1      0      0
  RBM10 WILD-TYPE      5      6      5      3
D5V1, multiclass
[1] "Remove cluster labels:" "RBM10 MUTATED"         
clus
  RBM10 MUTATED RBM10 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1677 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        0      1      0
  RBM10 WILD-TYPE      7      8      4
D5V2, multiclass
[1] "Remove cluster labels:" "RBM10 MUTATED"         
clus
  RBM10 MUTATED RBM10 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1677 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM10 MUTATED        3     18      5      7
  RBM10 WILD-TYPE     62    192     67    124
D5V3, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             3              62
  CLUS_2            18             192
  CLUS_3             5              67
  CLUS_4             7             124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        4      8     16
  RBM10 WILD-TYPE    127    130    145
D5V4, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             8             130
  CLUS_3            16             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        4      1      7
  RBM10 WILD-TYPE     38     70     56
D5V5, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             1              70
  CLUS_3             7              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 CLUS_4 CLUS_5
  RBM10 MUTATED        2      4      1      3      2
  RBM10 WILD-TYPE     37     28     42     27     30
D5V6, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             4              28
  CLUS_3             1              42
  CLUS_4             3              27
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED       10     14      9
  RBM10 WILD-TYPE    140    171    134
D5V7, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1            10             140
  CLUS_2            14             171
  CLUS_3             9             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RBM10 MUTATED        3      8      7      2      2      5      6
  RBM10 WILD-TYPE     69    101     83     42     47     41     62
D5V8, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             8             101
  CLUS_3             7              83
  CLUS_4             2              42
  CLUS_5             2              47
  CLUS_6             5              41
  CLUS_7             6              62
[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
  RBM10 MUTATED       13     15      5
  RBM10 WILD-TYPE    162    196     85
D5V9, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1            13             162
  CLUS_2            15             196
  CLUS_3             5              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
  RBM10 MUTATED        9      8      7      9
  RBM10 WILD-TYPE     61    178    124     80
D5V10, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             9              61
  CLUS_2             8             178
  CLUS_3             7             124
  CLUS_4             9              80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED       12      9      5
  RBM10 WILD-TYPE    129    173     84
D5V11, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1            12             129
  CLUS_2             9             173
  CLUS_3             5              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
  RBM10 MUTATED        6     13      7
  RBM10 WILD-TYPE     88    220     78
D5V12, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             6              88
  CLUS_2            13             220
  CLUS_3             7              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"

Clustering(6) Variable = SMARCA4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA4 MUTATED        0      1      0      1
  SMARCA4 WILD-TYPE      5      6      5      2
D6V1, multiclass
[1] "Remove cluster labels:" "SMARCA4 MUTATED"       
clus
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        1      0      1
  SMARCA4 WILD-TYPE      6      9      3
D6V2, multiclass
[1] "Remove cluster labels:" "SMARCA4 MUTATED"       
clus
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"SMARCA4 WILD-TYPE" "SMARCA4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCA4 MUTATED        4     15      9     10
  SMARCA4 WILD-TYPE     61    195     63    121
D6V3, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               4                61
  CLUS_2              15               195
  CLUS_3               9                63
  CLUS_4              10               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        6     26      4
  SMARCA4 WILD-TYPE    125    112    157
D6V4, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               6               125
  CLUS_2              26               112
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        1      4      4
  SMARCA4 WILD-TYPE     41     67     59
D6V5, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4                67
  CLUS_3               4                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 CLUS_4 CLUS_5
  SMARCA4 MUTATED        1      3      2      1      2
  SMARCA4 WILD-TYPE     38     29     41     29     30
D6V6, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               3                29
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               2                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        1     18     19
  SMARCA4 WILD-TYPE    149    167    124
D6V7, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               1               149
  CLUS_2              18               167
  CLUS_3              19               124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SMARCA4 MUTATED        0      5     13      2      4     14      0
  SMARCA4 WILD-TYPE     72    104     77     42     45     32     68
D6V8, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               5               104
  CLUS_3              13                77
  CLUS_4               2                42
  CLUS_5               4                45
  CLUS_6              14                32
  CLUS_7               0                68
[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
  SMARCA4 MUTATED        7     26      4
  SMARCA4 WILD-TYPE    168    185     86
D6V9, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               7               168
  CLUS_2              26               185
  CLUS_3               4                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
  SMARCA4 MUTATED        6     14      2     15
  SMARCA4 WILD-TYPE     64    172    129     74
D6V10, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               6                64
  CLUS_2              14               172
  CLUS_3               2               129
  CLUS_4              15                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        7     22      5
  SMARCA4 WILD-TYPE    134    160     84
D6V11, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               7               134
  CLUS_2              22               160
  CLUS_3               5                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
  SMARCA4 MUTATED        1     31      2
  SMARCA4 WILD-TYPE     93    202     83
D6V12, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               1                93
  CLUS_2              31               202
  CLUS_3               2                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"

Clustering(7) Variable = STK11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK11 MUTATED        0      0      0      0
  STK11 WILD-TYPE      5      7      5      3
D7V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        0      0      0
  STK11 WILD-TYPE      7      9      4
D7V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK11 MUTATED       26     29     15      7
  STK11 WILD-TYPE     39    181     57    124
D7V3, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            26              39
  CLUS_2            29             181
  CLUS_3            15              57
  CLUS_4             7             124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED       10     34     26
  STK11 WILD-TYPE    121    104    135
D7V4, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            10             121
  CLUS_2            34             104
  CLUS_3            26             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED       12      5     15
  STK11 WILD-TYPE     30     66     48
D7V5, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            12              30
  CLUS_2             5              66
  CLUS_3            15              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
  STK11 MUTATED        1     16      4      6      5
  STK11 WILD-TYPE     38     16     39     24     27
D7V6, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             1              38
  CLUS_2            16              16
  CLUS_3             4              39
  CLUS_4             6              24
  CLUS_5             5              27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED       10      9     56
  STK11 WILD-TYPE    140    176     87
D7V7, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            10             140
  CLUS_2             9             176
  CLUS_3            56              87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STK11 MUTATED        3      2      1     24     25     17      3
  STK11 WILD-TYPE     69    107     89     20     24     29     65
D7V8, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             2             107
  CLUS_3             1              89
  CLUS_4            24              20
  CLUS_5            25              24
  CLUS_6            17              29
  CLUS_7             3              65
[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
  STK11 MUTATED       26     38     11
  STK11 WILD-TYPE    149    173     79
D7V9, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            26             149
  CLUS_2            38             173
  CLUS_3            11              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
  STK11 MUTATED       18     30     11     16
  STK11 WILD-TYPE     52    156    120     73
D7V10, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            18              52
  CLUS_2            30             156
  CLUS_3            11             120
  CLUS_4            16              73
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED       23     36     10
  STK11 WILD-TYPE    118    146     79
D7V11, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            23             118
  CLUS_2            36             146
  CLUS_3            10              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
  STK11 MUTATED       18     43      8
  STK11 WILD-TYPE     76    190     77
D7V12, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            18              76
  CLUS_2            43             190
  CLUS_3             8              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"

Clustering(8) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        0      0      0      0
  RB1 WILD-TYPE      5      7      5      3
D8V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        0      0      0
  RB1 WILD-TYPE      7      9      4
D8V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        3      9      3     11
  RB1 WILD-TYPE     62    201     69    120
D8V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            62
  CLUS_2           9           201
  CLUS_3           3            69
  CLUS_4          11           120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4     13      8
  RB1 WILD-TYPE    127    125    153
D8V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4           127
  CLUS_2          13           125
  CLUS_3           8           153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      4      1
  RB1 WILD-TYPE     39     67     62
D8V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            39
  CLUS_2           4            67
  CLUS_3           1            62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RB1 MUTATED        3      0      3      1      1
  RB1 WILD-TYPE     36     32     40     29     31
D8V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            36
  CLUS_2           0            32
  CLUS_3           3            40
  CLUS_4           1            29
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        9     14      3
  RB1 WILD-TYPE    141    171    140
D8V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           9           141
  CLUS_2          14           171
  CLUS_3           3           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RB1 MUTATED        2      2     16      0      1      1      4
  RB1 WILD-TYPE     70    107     74     44     48     45     64
D8V8, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            70
  CLUS_2           2           107
  CLUS_3          16            74
  CLUS_4           0            44
  CLUS_5           1            48
  CLUS_6           1            45
  CLUS_7           4            64
[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        5     15      6
  RB1 WILD-TYPE    170    196     84
D8V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           5           170
  CLUS_2          15           196
  CLUS_3           6            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
  RB1 MUTATED        0      8     10      8
  RB1 WILD-TYPE     70    178    121     81
D8V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0            70
  CLUS_2           8           178
  CLUS_3          10           121
  CLUS_4           8            81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED       10     14      1
  RB1 WILD-TYPE    131    168     88
D8V11, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          10           131
  CLUS_2          14           168
  CLUS_3           1            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
  RB1 MUTATED        5     15      5
  RB1 WILD-TYPE     89    218     80
D8V12, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           5            89
  CLUS_2          15           218
  CLUS_3           5            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"

Clustering(9) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        0      0      0      1
  ARID1A WILD-TYPE      5      7      5      2
D9V1, multiclass
[1] "Remove cluster labels:" "ARID1A MUTATED"        
clus
  ARID1A MUTATED ARID1A WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        0      0      1
  ARID1A WILD-TYPE      7      9      3
D9V2, multiclass
[1] "Remove cluster labels:" "ARID1A MUTATED"        
clus
  ARID1A MUTATED ARID1A WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"ARID1A WILD-TYPE" "ARID1A WILD-TYPE" "ARID1A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        4     14      6      6
  ARID1A WILD-TYPE     61    196     66    125
D9V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              4               61
  CLUS_2             14              196
  CLUS_3              6               66
  CLUS_4              6              125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      9     12
  ARID1A WILD-TYPE    124    129    149
D9V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              7              124
  CLUS_2              9              129
  CLUS_3             12              149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      4
  ARID1A WILD-TYPE     39     68     59
D9V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3               68
  CLUS_3              4               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 CLUS_4 CLUS_5
  ARID1A MUTATED        3      3      2      1      1
  ARID1A WILD-TYPE     36     29     41     29     31
D9V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               36
  CLUS_2              3               29
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        7     15      8
  ARID1A WILD-TYPE    143    170    135
D9V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              7              143
  CLUS_2             15              170
  CLUS_3              8              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARID1A MUTATED        7      6      7      2      3      2      3
  ARID1A WILD-TYPE     65    103     83     42     46     44     65
D9V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              7               65
  CLUS_2              6              103
  CLUS_3              7               83
  CLUS_4              2               42
  CLUS_5              3               46
  CLUS_6              2               44
  CLUS_7              3               65
[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        8     18      4
  ARID1A WILD-TYPE    167    193     86
D9V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8              167
  CLUS_2             18              193
  CLUS_3              4               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
  ARID1A MUTATED        2      9      8     11
  ARID1A WILD-TYPE     68    177    123     78
D9V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              9              177
  CLUS_3              8              123
  CLUS_4             11               78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED       11      6      9
  ARID1A WILD-TYPE    130    176     80
D9V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             11              130
  CLUS_2              6              176
  CLUS_3              9               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
  ARID1A MUTATED        2     19      5
  ARID1A WILD-TYPE     92    214     80
D9V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               92
  CLUS_2             19              214
  CLUS_3              5               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"

Clustering(10) Variable = NF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED        0      2      1      1
  NF1 WILD-TYPE      5      5      4      2
D10V1, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           0             5
  CLUS_2           2             5
  CLUS_3           1             4
  CLUS_4           1             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        2      1      1
  NF1 WILD-TYPE      5      8      3
D10V2, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           2             5
  CLUS_2           1             8
  CLUS_3           1             3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED        5     22     10     18
  NF1 WILD-TYPE     60    188     62    113
D10V3, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           5            60
  CLUS_2          22           188
  CLUS_3          10            62
  CLUS_4          18           113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       15     18     19
  NF1 WILD-TYPE    116    120    142
D10V4, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          15           116
  CLUS_2          18           120
  CLUS_3          19           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        4     10      7
  NF1 WILD-TYPE     38     61     56
D10V5, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4            38
  CLUS_2          10            61
  CLUS_3           7            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 CLUS_4 CLUS_5
  NF1 MUTATED        3      2      8      2      6
  NF1 WILD-TYPE     36     30     35     28     26
D10V6, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3            36
  CLUS_2           2            30
  CLUS_3           8            35
  CLUS_4           2            28
  CLUS_5           6            26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       12     29     13
  NF1 WILD-TYPE    138    156    130
D10V7, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          12           138
  CLUS_2          29           156
  CLUS_3          13           130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NF1 MUTATED        4     18     12      2      5      5      8
  NF1 WILD-TYPE     68     91     78     42     44     41     60
D10V8, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4            68
  CLUS_2          18            91
  CLUS_3          12            78
  CLUS_4           2            42
  CLUS_5           5            44
  CLUS_6           5            41
  CLUS_7           8            60
[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
  NF1 MUTATED       13     29     12
  NF1 WILD-TYPE    162    182     78
D10V9, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          13           162
  CLUS_2          29           182
  CLUS_3          12            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
  NF1 MUTATED        4     22     15     13
  NF1 WILD-TYPE     66    164    116     76
D10V10, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           4            66
  CLUS_2          22           164
  CLUS_3          15           116
  CLUS_4          13            76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       17     15     15
  NF1 WILD-TYPE    124    167     74
D10V11, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          17           124
  CLUS_2          15           167
  CLUS_3          15            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
  NF1 MUTATED        5     32     10
  NF1 WILD-TYPE     89    201     75
D10V12, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           5            89
  CLUS_2          32           201
  CLUS_3          10            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"

Clustering(11) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        0      3      0      0
  BRAF WILD-TYPE      5      4      5      3
D11V1, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              5
  CLUS_2            3              4
  CLUS_3            0              5
  CLUS_4            0              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
  BRAF MUTATED        1      2      0
  BRAF WILD-TYPE      6      7      4
D11V2, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1              6
  CLUS_2            2              7
  CLUS_3            0              4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        5     16      4     14
  BRAF WILD-TYPE     60    194     68    117
D11V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            5             60
  CLUS_2           16            194
  CLUS_3            4             68
  CLUS_4           14            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        8      8     20
  BRAF WILD-TYPE    123    130    141
D11V4, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            8            123
  CLUS_2            8            130
  CLUS_3           20            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        5      6      4
  BRAF WILD-TYPE     37     65     59
D11V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            5             37
  CLUS_2            6             65
  CLUS_3            4             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 CLUS_4 CLUS_5
  BRAF MUTATED        4      3      4      1      3
  BRAF WILD-TYPE     35     29     39     29     29
D11V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            4             35
  CLUS_2            3             29
  CLUS_3            4             39
  CLUS_4            1             29
  CLUS_5            3             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       10     20      9
  BRAF WILD-TYPE    140    165    134
D11V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           10            140
  CLUS_2           20            165
  CLUS_3            9            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BRAF MUTATED        5     14      8      4      2      1      5
  BRAF WILD-TYPE     67     95     82     40     47     45     63
D11V8, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            5             67
  CLUS_2           14             95
  CLUS_3            8             82
  CLUS_4            4             40
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            5             63
[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
  BRAF MUTATED       16     18      5
  BRAF WILD-TYPE    159    193     85
D11V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           16            159
  CLUS_2           18            193
  CLUS_3            5             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
  BRAF MUTATED       10     19      5      5
  BRAF WILD-TYPE     60    167    126     84
D11V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           10             60
  CLUS_2           19            167
  CLUS_3            5            126
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       12     15      6
  BRAF WILD-TYPE    129    167     83
D11V11, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           12            129
  CLUS_2           15            167
  CLUS_3            6             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
  BRAF MUTATED        8     16      9
  BRAF WILD-TYPE     86    217     76
D11V12, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            8             86
  CLUS_2           16            217
  CLUS_3            9             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"

Clustering(12) Variable = MGA MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGA MUTATED        0      0      0      0
  MGA WILD-TYPE      5      7      5      3
D12V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        0      0      0
  MGA WILD-TYPE      7      9      4
D12V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGA MUTATED        5     12      8     14
  MGA WILD-TYPE     60    198     64    117
D12V3, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            60
  CLUS_2          12           198
  CLUS_3           8            64
  CLUS_4          14           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        5     15     16
  MGA WILD-TYPE    126    123    145
D12V4, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5           126
  CLUS_2          15           123
  CLUS_3          16           145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        3      5      7
  MGA WILD-TYPE     39     66     56
D12V5, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           3            39
  CLUS_2           5            66
  CLUS_3           7            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 CLUS_4 CLUS_5
  MGA MUTATED        1      4      7      2      1
  MGA WILD-TYPE     38     28     36     28     31
D12V6, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           1            38
  CLUS_2           4            28
  CLUS_3           7            36
  CLUS_4           2            28
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        7     26      7
  MGA WILD-TYPE    143    159    136
D12V7, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           7           143
  CLUS_2          26           159
  CLUS_3           7           136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MGA MUTATED        3     15     11      3      2      2      4
  MGA WILD-TYPE     69     94     79     41     47     44     64
D12V8, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           3            69
  CLUS_2          15            94
  CLUS_3          11            79
  CLUS_4           3            41
  CLUS_5           2            47
  CLUS_6           2            44
  CLUS_7           4            64
[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        8     25      6
  MGA WILD-TYPE    167    186     84
D12V9, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           8           167
  CLUS_2          25           186
  CLUS_3           6            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
  MGA MUTATED        5     17      5     12
  MGA WILD-TYPE     65    169    126     77
D12V10, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            65
  CLUS_2          17           169
  CLUS_3           5           126
  CLUS_4          12            77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       13     18      4
  MGA WILD-TYPE    128    164     85
D12V11, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          13           128
  CLUS_2          18           164
  CLUS_3           4            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
  MGA MUTATED        3     23      9
  MGA WILD-TYPE     91    210     76
D12V12, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           3            91
  CLUS_2          23           210
  CLUS_3           9            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"

Clustering(13) Variable = CHRND MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHRND MUTATED        0      1      0      0
  CHRND WILD-TYPE      5      6      5      3
D13V1, multiclass
[1] "Remove cluster labels:" "CHRND MUTATED"         
clus
  CHRND MUTATED CHRND WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRND MUTATED        0      1      0
  CHRND WILD-TYPE      7      8      4
D13V2, multiclass
[1] "Remove cluster labels:" "CHRND MUTATED"         
clus
  CHRND MUTATED CHRND WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"CHRND WILD-TYPE" "CHRND WILD-TYPE" "CHRND WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHRND MUTATED        1      5      4      8
  CHRND WILD-TYPE     64    205     68    123
D13V3, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             4              68
  CLUS_4             8             123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRND MUTATED        3      5      7
  CHRND WILD-TYPE    128    133    154
D13V4, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             3             128
  CLUS_2             5             133
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRND MUTATED        1      2      4
  CHRND WILD-TYPE     41     69     59
D13V5, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             4              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 CLUS_4 CLUS_5
  CHRND MUTATED        0      2      2      3      0
  CHRND WILD-TYPE     39     30     41     27     32
D13V6, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             0              39
  CLUS_2             2              30
  CLUS_3             2              41
  CLUS_4             3              27
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRND MUTATED        3      7      8
  CHRND WILD-TYPE    147    178    135
D13V7, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             3             147
  CLUS_2             7             178
  CLUS_3             8             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CHRND MUTATED        0      5      2      1      5      1      4
  CHRND WILD-TYPE     72    104     88     43     44     45     64
D13V8, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             0              72
  CLUS_2             5             104
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             5              44
  CLUS_6             1              45
  CLUS_7             4              64
[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
  CHRND MUTATED        4     12      2
  CHRND WILD-TYPE    171    199     88
D13V9, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             4             171
  CLUS_2            12             199
  CLUS_3             2              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
  CHRND MUTATED        1      6      3      8
  CHRND WILD-TYPE     69    180    128     81
D13V10, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             180
  CLUS_3             3             128
  CLUS_4             8              81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRND MUTATED        3      7      4
  CHRND WILD-TYPE    138    175     85
D13V11, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             3             138
  CLUS_2             7             175
  CLUS_3             4              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
  CHRND MUTATED        2     11      1
  CHRND WILD-TYPE     92    222     84
D13V12, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             2              92
  CLUS_2            11             222
  CLUS_3             1              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"

Clustering(14) Variable = MET MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED        0      0      1      0
  MET WILD-TYPE      5      7      4      3
D14V1, multiclass
[1] "Remove cluster labels:" "MET MUTATED"           
clus
  MET MUTATED MET WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        1      0      0
  MET WILD-TYPE      6      9      4
D14V2, multiclass
[1] "Remove cluster labels:" "MET MUTATED"           
clus
  MET MUTATED MET WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" "MET WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED        0     12      1      8
  MET WILD-TYPE     65    198     71    123
D14V3, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           0            65
  CLUS_2          12           198
  CLUS_3           1            71
  CLUS_4           8           123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        5      5      9
  MET WILD-TYPE    126    133    152
D14V4, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5           126
  CLUS_2           5           133
  CLUS_3           9           152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        3      7      4
  MET WILD-TYPE     39     64     59
D14V5, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            39
  CLUS_2           7            64
  CLUS_3           4            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 CLUS_4 CLUS_5
  MET MUTATED        2      1      8      1      2
  MET WILD-TYPE     37     31     35     29     30
D14V6, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            37
  CLUS_2           1            31
  CLUS_3           8            35
  CLUS_4           1            29
  CLUS_5           2            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        7     10      4
  MET WILD-TYPE    143    175    139
D14V7, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           7           143
  CLUS_2          10           175
  CLUS_3           4           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MET MUTATED        3      6      4      1      0      2      5
  MET WILD-TYPE     69    103     86     43     49     44     63
D14V8, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            69
  CLUS_2           6           103
  CLUS_3           4            86
  CLUS_4           1            43
  CLUS_5           0            49
  CLUS_6           2            44
  CLUS_7           5            63
[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
  MET MUTATED        9      5      7
  MET WILD-TYPE    166    206     83
D14V9, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           9           166
  CLUS_2           5           206
  CLUS_3           7            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
  MET MUTATED        2      9      9      1
  MET WILD-TYPE     68    177    122     88
D14V10, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            68
  CLUS_2           9           177
  CLUS_3           9           122
  CLUS_4           1            88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        8      6      5
  MET WILD-TYPE    133    176     84
D14V11, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           8           133
  CLUS_2           6           176
  CLUS_3           5            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
  MET MUTATED        2     10      7
  MET WILD-TYPE     92    223     78
D14V12, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            92
  CLUS_2          10           223
  CLUS_3           7            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"

Clustering(15) Variable = CDKN2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKN2A MUTATED        0      0      0      1
  CDKN2A WILD-TYPE      5      7      5      2
D15V1, multiclass
[1] "Remove cluster labels:" "CDKN2A MUTATED"        
clus
  CDKN2A MUTATED CDKN2A WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        0      0      1
  CDKN2A WILD-TYPE      7      9      3
D15V2, multiclass
[1] "Remove cluster labels:" "CDKN2A MUTATED"        
clus
  CDKN2A MUTATED CDKN2A WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" "CDKN2A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDKN2A MUTATED        3      7      2      4
  CDKN2A WILD-TYPE     62    203     70    127
D15V3, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3               62
  CLUS_2              7              203
  CLUS_3              2               70
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        2      4      6
  CDKN2A WILD-TYPE    129    134    155
D15V4, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2              129
  CLUS_2              4              134
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        1      3      4
  CDKN2A WILD-TYPE     41     68     59
D15V5, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3               68
  CLUS_3              4               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 CLUS_4 CLUS_5
  CDKN2A MUTATED        2      2      1      2      1
  CDKN2A WILD-TYPE     37     30     42     28     31
D15V6, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               37
  CLUS_2              2               30
  CLUS_3              1               42
  CLUS_4              2               28
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        1      9      6
  CDKN2A WILD-TYPE    149    176    137
D15V7, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              1              149
  CLUS_2              9              176
  CLUS_3              6              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDKN2A MUTATED        0      6      5      1      0      2      2
  CDKN2A WILD-TYPE     72    103     85     43     49     44     66
D15V8, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              0               72
  CLUS_2              6              103
  CLUS_3              5               85
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              2               66
[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
  CDKN2A MUTATED        6      6      4
  CDKN2A WILD-TYPE    169    205     86
D15V9, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              6              169
  CLUS_2              6              205
  CLUS_3              4               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
  CDKN2A MUTATED        2      6      6      2
  CDKN2A WILD-TYPE     68    180    125     87
D15V10, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              180
  CLUS_3              6              125
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        3      3      5
  CDKN2A WILD-TYPE    138    179     84
D15V11, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3              138
  CLUS_2              3              179
  CLUS_3              5               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
  CDKN2A MUTATED        3      5      3
  CDKN2A WILD-TYPE     91    228     82
D15V12, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3               91
  CLUS_2              5              228
  CLUS_3              3               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"

Clustering(16) Variable = U2AF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  U2AF1 MUTATED        1      0      0      0
  U2AF1 WILD-TYPE      4      7      5      3
D16V1, multiclass
[1] "Remove cluster labels:" "U2AF1 MUTATED"         
clus
  U2AF1 MUTATED U2AF1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-64-1676      TCGA-64-1677 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  U2AF1 MUTATED        0      0      1
  U2AF1 WILD-TYPE      7      9      3
D16V2, multiclass
[1] "Remove cluster labels:" "U2AF1 MUTATED"         
clus
  U2AF1 MUTATED U2AF1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-64-1676      TCGA-64-1677 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" "U2AF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  U2AF1 MUTATED        1      5      1      5
  U2AF1 WILD-TYPE     64    205     71    126
D16V3, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             1              71
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  U2AF1 MUTATED        3      3      4
  U2AF1 WILD-TYPE    128    135    157
D16V4, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  U2AF1 MUTATED        1      3      0
  U2AF1 WILD-TYPE     41     68     63
D16V5, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             0              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 CLUS_4 CLUS_5
  U2AF1 MUTATED        1      0      2      0      1
  U2AF1 WILD-TYPE     38     32     41     30     31
D16V6, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  U2AF1 MUTATED        4      8      0
  U2AF1 WILD-TYPE    146    177    143
D16V7, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             8             177
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  U2AF1 MUTATED        1      7      2      0      0      0      2
  U2AF1 WILD-TYPE     71    102     88     44     49     46     66
D16V8, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             7             102
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             2              66
[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
  U2AF1 MUTATED        9      3      0
  U2AF1 WILD-TYPE    166    208     90
D16V9, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             9             166
  CLUS_2             3             208
  CLUS_3             0              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
  U2AF1 MUTATED        3      4      3      2
  U2AF1 WILD-TYPE     67    182    128     87
D16V10, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             182
  CLUS_3             3             128
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  U2AF1 MUTATED        7      3      0
  U2AF1 WILD-TYPE    134    179     89
D16V11, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             7             134
  CLUS_2             3             179
  CLUS_3             0              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
  U2AF1 MUTATED        2      5      3
  U2AF1 WILD-TYPE     92    228     82
D16V12, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             5             228
  CLUS_3             3              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"

Clustering(17) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        0      0      0      0
  SETD2 WILD-TYPE      5      7      5      3
D17V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0      0      0
  SETD2 WILD-TYPE      7      9      4
D17V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        2     16      7      5
  SETD2 WILD-TYPE     63    194     65    126
D17V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2            16             194
  CLUS_3             7              65
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       10      6     13
  SETD2 WILD-TYPE    121    132    148
D17V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            10             121
  CLUS_2             6             132
  CLUS_3            13             148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        4      4      4
  SETD2 WILD-TYPE     38     67     59
D17V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             4              67
  CLUS_3             4              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 CLUS_4 CLUS_5
  SETD2 MUTATED        2      0      3      2      5
  SETD2 WILD-TYPE     37     32     40     28     27
D17V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             3              40
  CLUS_4             2              28
  CLUS_5             5              27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       12     14      4
  SETD2 WILD-TYPE    138    171    139
D17V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            12             138
  CLUS_2            14             171
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SETD2 MUTATED        8      7      7      1      0      3      4
  SETD2 WILD-TYPE     64    102     83     43     49     43     64
D17V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             8              64
  CLUS_2             7             102
  CLUS_3             7              83
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             3              43
  CLUS_7             4              64
[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
  SETD2 MUTATED       13     10      6
  SETD2 WILD-TYPE    162    201     84
D17V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            13             162
  CLUS_2            10             201
  CLUS_3             6              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
  SETD2 MUTATED        4     12      7      6
  SETD2 WILD-TYPE     66    174    124     83
D17V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            12             174
  CLUS_3             7             124
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       12      6     11
  SETD2 WILD-TYPE    129    176     78
D17V11, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            12             129
  CLUS_2             6             176
  CLUS_3            11              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
  SETD2 MUTATED        2     18      9
  SETD2 WILD-TYPE     92    215     76
D17V12, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            18             215
  CLUS_3             9              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"

Clustering(18) Variable = DNMT3A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT3A MUTATED        0      0      0      0
  DNMT3A WILD-TYPE      5      7      5      3
D18V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        0      0      0
  DNMT3A WILD-TYPE      7      9      4
D18V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT3A MUTATED        3      9      4      3
  DNMT3A WILD-TYPE     62    201     68    128
D18V3, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              3               62
  CLUS_2              9              201
  CLUS_3              4               68
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        6      8      5
  DNMT3A WILD-TYPE    125    130    156
D18V4, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              6              125
  CLUS_2              8              130
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        0      1      4
  DNMT3A WILD-TYPE     42     70     59
D18V5, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1               70
  CLUS_3              4               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 CLUS_4 CLUS_5
  DNMT3A MUTATED        0      1      2      2      0
  DNMT3A WILD-TYPE     39     31     41     28     32
D18V6, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              2               41
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        4      8      7
  DNMT3A WILD-TYPE    146    177    136
D18V7, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              4              146
  CLUS_2              8              177
  CLUS_3              7              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DNMT3A MUTATED        3      3      5      1      2      4      1
  DNMT3A WILD-TYPE     69    106     85     43     47     42     67
D18V8, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              3               69
  CLUS_2              3              106
  CLUS_3              5               85
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              4               42
  CLUS_7              1               67
[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
  DNMT3A MUTATED        4     11      4
  DNMT3A WILD-TYPE    171    200     86
D18V9, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              4              171
  CLUS_2             11              200
  CLUS_3              4               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
  DNMT3A MUTATED        2      5      4      8
  DNMT3A WILD-TYPE     68    181    127     81
D18V10, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              181
  CLUS_3              4              127
  CLUS_4              8               81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        1     13      4
  DNMT3A WILD-TYPE    140    169     85
D18V11, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              1              140
  CLUS_2             13              169
  CLUS_3              4               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
  DNMT3A MUTATED        0     16      2
  DNMT3A WILD-TYPE     94    217     83
D18V12, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              0               94
  CLUS_2             16              217
  CLUS_3              2               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"

Clustering(19) Variable = ERBB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        1      1      0      0
  ERBB2 WILD-TYPE      4      6      5      3
D19V1, multiclass
[1] "Remove cluster labels:" "ERBB2 MUTATED"         
clus
  ERBB2 MUTATED ERBB2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-4112      TCGA-55-1592 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        1      1      0
  ERBB2 WILD-TYPE      6      8      4
D19V2, multiclass
[1] "Remove cluster labels:" "ERBB2 MUTATED"         
clus
  ERBB2 MUTATED ERBB2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-4112      TCGA-55-1592 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ERBB2 WILD-TYPE" "ERBB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        0      6      2      3
  ERBB2 WILD-TYPE     65    204     70    128
D19V3, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             6             204
  CLUS_3             2              70
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        2      0      5
  ERBB2 WILD-TYPE    129    138    156
D19V4, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             0             138
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        1      3      3
  ERBB2 WILD-TYPE     41     68     60
D19V5, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             3              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
  ERBB2 MUTATED        3      1      2      1      0
  ERBB2 WILD-TYPE     36     31     41     29     32
D19V6, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        2      6      3
  ERBB2 WILD-TYPE    148    179    140
D19V7, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             6             179
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ERBB2 MUTATED        3      6      1      1      0      0      0
  ERBB2 WILD-TYPE     69    103     89     43     49     46     68
D19V8, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             6             103
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             0              68
[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
  ERBB2 MUTATED        5      5      1
  ERBB2 WILD-TYPE    170    206     89
D19V9, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5             170
  CLUS_2             5             206
  CLUS_3             1              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
  ERBB2 MUTATED        4      4      2      1
  ERBB2 WILD-TYPE     66    182    129     88
D19V10, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             4             182
  CLUS_3             2             129
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        3      3      0
  ERBB2 WILD-TYPE    138    179     89
D19V11, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             0              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
  ERBB2 MUTATED        3      3      0
  ERBB2 WILD-TYPE     91    230     85
D19V12, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             3             230
  CLUS_3             0              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"

Clustering(20) Variable = ATM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATM MUTATED        2      0      0      0
  ATM WILD-TYPE      3      7      5      3
D20V1, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            2            18 
   TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123    TCGA-44-2656 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1676    TCGA-64-1677 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        1      0      1
  ATM WILD-TYPE      6      9      3
D20V2, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            2            18 
   TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123    TCGA-44-2656 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1676    TCGA-64-1677 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATM MUTATED       12     16     11      3
  ATM WILD-TYPE     53    194     61    128
D20V3, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          12            53
  CLUS_2          16           194
  CLUS_3          11            61
  CLUS_4           3           128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2     17     16
  ATM WILD-TYPE    129    121    145
D20V4, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           2           129
  CLUS_2          17           121
  CLUS_3          16           145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        6      3      8
  ATM WILD-TYPE     36     68     55
D20V5, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6            36
  CLUS_2           3            68
  CLUS_3           8            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 CLUS_4 CLUS_5
  ATM MUTATED        3      6      1      3      4
  ATM WILD-TYPE     36     26     42     27     28
D20V6, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           3            36
  CLUS_2           6            26
  CLUS_3           1            42
  CLUS_4           3            27
  CLUS_5           4            28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        8     11     23
  ATM WILD-TYPE    142    174    120
D20V7, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8           142
  CLUS_2          11           174
  CLUS_3          23           120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ATM MUTATED        6      6      4      6     13      5      2
  ATM WILD-TYPE     66    103     86     38     36     41     66
D20V8, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6            66
  CLUS_2           6           103
  CLUS_3           4            86
  CLUS_4           6            38
  CLUS_5          13            36
  CLUS_6           5            41
  CLUS_7           2            66
[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       14     20      8
  ATM WILD-TYPE    161    191     82
D20V9, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          14           161
  CLUS_2          20           191
  CLUS_3           8            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
  ATM MUTATED        8     23      6      5
  ATM WILD-TYPE     62    163    125     84
D20V10, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8            62
  CLUS_2          23           163
  CLUS_3           6           125
  CLUS_4           5            84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        9     18      8
  ATM WILD-TYPE    132    164     81
D20V11, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           9           132
  CLUS_2          18           164
  CLUS_3           8            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
  ATM MUTATED        8     21      6
  ATM WILD-TYPE     86    212     79
D20V12, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8            86
  CLUS_2          21           212
  CLUS_3           6            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"

Clustering(21) Variable = COL5A2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL5A2 MUTATED        0      1      0      0
  COL5A2 WILD-TYPE      5      6      5      3
D21V1, multiclass
[1] "Remove cluster labels:" "COL5A2 MUTATED"        
clus
  COL5A2 MUTATED COL5A2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A2 MUTATED        1      0      0
  COL5A2 WILD-TYPE      6      9      4
D21V2, multiclass
[1] "Remove cluster labels:" "COL5A2 MUTATED"        
clus
  COL5A2 MUTATED COL5A2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" "COL5A2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL5A2 MUTATED        6     12     13     17
  COL5A2 WILD-TYPE     59    198     59    114
D21V3, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              6               59
  CLUS_2             12              198
  CLUS_3             13               59
  CLUS_4             17              114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A2 MUTATED        8     20     15
  COL5A2 WILD-TYPE    123    118    146
D21V4, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              8              123
  CLUS_2             20              118
  CLUS_3             15              146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A2 MUTATED        0      6     12
  COL5A2 WILD-TYPE     42     65     51
D21V5, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              6               65
  CLUS_3             12               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
  COL5A2 MUTATED        4      4      5      4      1
  COL5A2 WILD-TYPE     35     28     38     26     31
D21V6, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              4               35
  CLUS_2              4               28
  CLUS_3              5               38
  CLUS_4              4               26
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A2 MUTATED        8     23     17
  COL5A2 WILD-TYPE    142    162    126
D21V7, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              8              142
  CLUS_2             23              162
  CLUS_3             17              126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL5A2 MUTATED        2     12     13      2      7      7      5
  COL5A2 WILD-TYPE     70     97     77     42     42     39     63
D21V8, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              2               70
  CLUS_2             12               97
  CLUS_3             13               77
  CLUS_4              2               42
  CLUS_5              7               42
  CLUS_6              7               39
  CLUS_7              5               63
[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
  COL5A2 MUTATED        6     31     10
  COL5A2 WILD-TYPE    169    180     80
D21V9, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              6              169
  CLUS_2             31              180
  CLUS_3             10               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
  COL5A2 MUTATED        2     21      7     17
  COL5A2 WILD-TYPE     68    165    124     72
D21V10, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              2               68
  CLUS_2             21              165
  CLUS_3              7              124
  CLUS_4             17               72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A2 MUTATED       10     22     10
  COL5A2 WILD-TYPE    131    160     79
D21V11, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1             10              131
  CLUS_2             22              160
  CLUS_3             10               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
  COL5A2 MUTATED        5     33      4
  COL5A2 WILD-TYPE     89    200     81
D21V12, multiclass
        clus
vv       COL5A2 MUTATED COL5A2 WILD-TYPE
  CLUS_1              5               89
  CLUS_2             33              200
  CLUS_3              4               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"

Clustering(22) Variable = NFE2L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        0      0      0      0
  NFE2L2 WILD-TYPE      5      7      5      3
D22V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        0      0      0
  NFE2L2 WILD-TYPE      7      9      4
D22V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        2      8      1      2
  NFE2L2 WILD-TYPE     63    202     71    129
D22V3, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              8              202
  CLUS_3              1               71
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      5      5
  NFE2L2 WILD-TYPE    129    133    156
D22V4, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              5              133
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      2      1
  NFE2L2 WILD-TYPE     41     69     62
D22V5, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2               69
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFE2L2 MUTATED        0      1      1      0      2
  NFE2L2 WILD-TYPE     39     31     42     30     30
D22V6, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      5      7
  NFE2L2 WILD-TYPE    149    180    136
D22V7, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              5              180
  CLUS_3              7              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NFE2L2 MUTATED        0      2      3      3      0      4      1
  NFE2L2 WILD-TYPE     72    107     87     41     49     42     67
D22V8, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              3               87
  CLUS_4              3               41
  CLUS_5              0               49
  CLUS_6              4               42
  CLUS_7              1               67
[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      6      2
  NFE2L2 WILD-TYPE    171    205     88
D22V9, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              6              205
  CLUS_3              2               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
  NFE2L2 MUTATED        2      8      1      1
  NFE2L2 WILD-TYPE     68    178    130     88
D22V10, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              8              178
  CLUS_3              1              130
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        2      6      2
  NFE2L2 WILD-TYPE    139    176     87
D22V11, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              6              176
  CLUS_3              2               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
  NFE2L2 MUTATED        3      6      1
  NFE2L2 WILD-TYPE     91    227     84
D22V12, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               91
  CLUS_2              6              227
  CLUS_3              1               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"

Clustering(23) Variable = PPP3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP3CA MUTATED        0      0      0      0
  PPP3CA WILD-TYPE      5      7      5      3
D23V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PPP3CA MUTATED        0      0      0
  PPP3CA WILD-TYPE      7      9      4
D23V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP3CA MUTATED        2      6      1      3
  PPP3CA WILD-TYPE     63    204     71    128
D23V3, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6              204
  CLUS_3              1               71
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PPP3CA MUTATED        1      4      6
  PPP3CA WILD-TYPE    130    134    155
D23V4, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              1              130
  CLUS_2              4              134
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PPP3CA MUTATED        1      1      0
  PPP3CA WILD-TYPE     41     70     63
D23V5, multiclass
[1] "Remove cluster labels:" "PPP3CA MUTATED"        
clus
  PPP3CA MUTATED PPP3CA WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4426       TCGA-05-4430 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-05-5420       TCGA-05-5423       TCGA-05-5429       TCGA-05-5715 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-38-4626       TCGA-38-4627       TCGA-38-6178       TCGA-44-2656 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-2657       TCGA-44-2661       TCGA-44-2665       TCGA-44-3396 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-3919       TCGA-44-4112       TCGA-44-5645       TCGA-44-6145 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-6146       TCGA-44-6147       TCGA-44-6774       TCGA-44-6775 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6779       TCGA-44-7659 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-7662       TCGA-44-7670       TCGA-44-7671       TCGA-44-7672 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-4486       TCGA-49-4487       TCGA-49-4488       TCGA-49-4494 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-7498       TCGA-73-7499 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-75-5122       TCGA-75-6203       TCGA-75-6205       TCGA-75-6207 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-75-6211       TCGA-75-6212       TCGA-75-6214       TCGA-75-7027 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-75-7030       TCGA-75-7031       TCGA-78-7143       TCGA-78-7145 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7147       TCGA-78-7148       TCGA-78-7149       TCGA-78-7150 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7152       TCGA-78-7153       TCGA-78-7154       TCGA-78-7155 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP3CA MUTATED        0      1      0      0      1
  PPP3CA WILD-TYPE     39     31     43     30     31
D23V6, multiclass
[1] "Remove cluster labels:" "PPP3CA MUTATED"        
clus
  PPP3CA MUTATED PPP3CA WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4426       TCGA-05-4430 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-05-5420       TCGA-05-5423       TCGA-05-5429       TCGA-05-5715 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-38-4626       TCGA-38-4627       TCGA-38-6178       TCGA-44-2656 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-2657       TCGA-44-2661       TCGA-44-2665       TCGA-44-3396 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-3919       TCGA-44-4112       TCGA-44-5645       TCGA-44-6145 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-6146       TCGA-44-6147       TCGA-44-6774       TCGA-44-6775 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6779       TCGA-44-7659 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-44-7662       TCGA-44-7670       TCGA-44-7671       TCGA-44-7672 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-4486       TCGA-49-4487       TCGA-49-4488       TCGA-49-4494 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-7498       TCGA-73-7499 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-75-5122       TCGA-75-6203       TCGA-75-6205       TCGA-75-6207 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-75-6211       TCGA-75-6212       TCGA-75-6214       TCGA-75-7027 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-75-7030       TCGA-75-7031       TCGA-78-7143       TCGA-78-7145 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7147       TCGA-78-7148       TCGA-78-7149       TCGA-78-7150 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7152       TCGA-78-7153       TCGA-78-7154       TCGA-78-7155 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"PPP3CA WILD-TYPE" "PPP3CA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PPP3CA MUTATED        2      5      5
  PPP3CA WILD-TYPE    148    180    138
D23V7, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              2              148
  CLUS_2              5              180
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PPP3CA MUTATED        1      3      3      5      0      0      0
  PPP3CA WILD-TYPE     71    106     87     39     49     46     68
D23V8, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              1               71
  CLUS_2              3              106
  CLUS_3              3               87
  CLUS_4              5               39
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              0               68
[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
  PPP3CA MUTATED        2      9      1
  PPP3CA WILD-TYPE    173    202     89
D23V9, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              2              173
  CLUS_2              9              202
  CLUS_3              1               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
  PPP3CA MUTATED        1      8      1      2
  PPP3CA WILD-TYPE     69    178    130     87
D23V10, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              178
  CLUS_3              1              130
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PPP3CA MUTATED        3      7      1
  PPP3CA WILD-TYPE    138    175     88
D23V11, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              3              138
  CLUS_2              7              175
  CLUS_3              1               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
  PPP3CA MUTATED        3      8      0
  PPP3CA WILD-TYPE     91    225     85
D23V12, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              3               91
  CLUS_2              8              225
  CLUS_3              0               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"

Clustering(24) Variable = FCRLA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FCRLA MUTATED        0      1      0      0
  FCRLA WILD-TYPE      5      6      5      3
D24V1, multiclass
[1] "Remove cluster labels:" "FCRLA MUTATED"         
clus
  FCRLA MUTATED FCRLA WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FCRLA MUTATED        1      0      0
  FCRLA WILD-TYPE      6      9      4
D24V2, multiclass
[1] "Remove cluster labels:" "FCRLA MUTATED"         
clus
  FCRLA MUTATED FCRLA WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FCRLA WILD-TYPE" "FCRLA WILD-TYPE" "FCRLA WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FCRLA MUTATED        4      6      0      5
  FCRLA WILD-TYPE     61    204     72    126
D24V3, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             4              61
  CLUS_2             6             204
  CLUS_3             0              72
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FCRLA MUTATED        4      4      7
  FCRLA WILD-TYPE    127    134    154
D24V4, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             4             127
  CLUS_2             4             134
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FCRLA MUTATED        2      3      1
  FCRLA WILD-TYPE     40     68     62
D24V5, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3              68
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FCRLA MUTATED        2      0      2      0      2
  FCRLA WILD-TYPE     37     32     41     30     30
D24V6, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FCRLA MUTATED        4      7      4
  FCRLA WILD-TYPE    146    178    139
D24V7, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             4             146
  CLUS_2             7             178
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FCRLA MUTATED        1      5      1      0      3      2      3
  FCRLA WILD-TYPE     71    104     89     44     46     44     65
D24V8, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             2              44
  CLUS_7             3              65
[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
  FCRLA MUTATED        5      7      3
  FCRLA WILD-TYPE    170    204     87
D24V9, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             5             170
  CLUS_2             7             204
  CLUS_3             3              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
  FCRLA MUTATED        3      6      3      3
  FCRLA WILD-TYPE     67    180    128     86
D24V10, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             3              67
  CLUS_2             6             180
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FCRLA MUTATED        4      8      2
  FCRLA WILD-TYPE    137    174     87
D24V11, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             4             137
  CLUS_2             8             174
  CLUS_3             2              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
  FCRLA MUTATED        1      8      5
  FCRLA WILD-TYPE     93    225     80
D24V12, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             1              93
  CLUS_2             8             225
  CLUS_3             5              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"

Clustering(25) Variable = ARID2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID2 MUTATED        0      1      1      0
  ARID2 WILD-TYPE      5      6      4      3
D25V1, multiclass
[1] "Remove cluster labels:" "ARID2 MUTATED"         
clus
  ARID2 MUTATED ARID2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        2      0      0
  ARID2 WILD-TYPE      5      9      4
D25V2, multiclass
[1] "Remove cluster labels:" "ARID2 MUTATED"         
clus
  ARID2 MUTATED ARID2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ARID2 WILD-TYPE" "ARID2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID2 MUTATED        3      9      5      7
  ARID2 WILD-TYPE     62    201     67    124
D25V3, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             9             201
  CLUS_3             5              67
  CLUS_4             7             124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        5      6     10
  ARID2 WILD-TYPE    126    132    151
D25V4, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             5             126
  CLUS_2             6             132
  CLUS_3            10             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        3      5      2
  ARID2 WILD-TYPE     39     66     61
D25V5, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             5              66
  CLUS_3             2              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
  ARID2 MUTATED        3      2      2      0      3
  ARID2 WILD-TYPE     36     30     41     30     29
D25V6, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             2              30
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        6     14      4
  ARID2 WILD-TYPE    144    171    139
D25V7, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             6             144
  CLUS_2            14             171
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARID2 MUTATED        1      5      6      5      0      4      3
  ARID2 WILD-TYPE     71    104     84     39     49     42     65
D25V8, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             6              84
  CLUS_4             5              39
  CLUS_5             0              49
  CLUS_6             4              42
  CLUS_7             3              65
[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
  ARID2 MUTATED        4     15      5
  ARID2 WILD-TYPE    171    196     85
D25V9, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2            15             196
  CLUS_3             5              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
  ARID2 MUTATED        3     13      3      5
  ARID2 WILD-TYPE     67    173    128     84
D25V10, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2            13             173
  CLUS_3             3             128
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        3      9      7
  ARID2 WILD-TYPE    138    173     82
D25V11, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             9             173
  CLUS_3             7              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
  ARID2 MUTATED        3     14      2
  ARID2 WILD-TYPE     91    219     83
D25V12, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            14             219
  CLUS_3             2              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"

Clustering(26) Variable = SLAMF9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLAMF9 MUTATED        0      1      0      1
  SLAMF9 WILD-TYPE      5      6      5      2
D26V1, multiclass
[1] "Remove cluster labels:" "SLAMF9 MUTATED"        
clus
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        0      1      1
  SLAMF9 WILD-TYPE      7      8      3
D26V2, multiclass
[1] "Remove cluster labels:" "SLAMF9 MUTATED"        
clus
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"SLAMF9 WILD-TYPE" "SLAMF9 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLAMF9 MUTATED        1      1      2      8
  SLAMF9 WILD-TYPE     64    209     70    123
D26V3, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              1              209
  CLUS_3              2               70
  CLUS_4              8              123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        0      6      5
  SLAMF9 WILD-TYPE    131    132    156
D26V4, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              6              132
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        1      1      2
  SLAMF9 WILD-TYPE     41     70     61
D26V5, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1               70
  CLUS_3              2               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
  SLAMF9 MUTATED        1      0      1      0      2
  SLAMF9 WILD-TYPE     38     32     42     30     30
D26V6, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        1      6      5
  SLAMF9 WILD-TYPE    149    179    138
D26V7, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              6              179
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLAMF9 MUTATED        2      4      4      0      1      1      0
  SLAMF9 WILD-TYPE     70    105     86     44     48     45     68
D26V8, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              2               70
  CLUS_2              4              105
  CLUS_3              4               86
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              1               45
  CLUS_7              0               68
[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
  SLAMF9 MUTATED        1      8      3
  SLAMF9 WILD-TYPE    174    203     87
D26V9, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              8              203
  CLUS_3              3               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
  SLAMF9 MUTATED        0      9      0      3
  SLAMF9 WILD-TYPE     70    177    131     86
D26V10, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              9              177
  CLUS_3              0              131
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        4      3      3
  SLAMF9 WILD-TYPE    137    179     86
D26V11, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              3              179
  CLUS_3              3               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
  SLAMF9 MUTATED        1      7      2
  SLAMF9 WILD-TYPE     93    226     83
D26V12, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              7              226
  CLUS_3              2               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"

Clustering(27) Variable = SLC4A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC4A3 MUTATED        0      1      0      0
  SLC4A3 WILD-TYPE      5      6      5      3
D27V1, multiclass
[1] "Remove cluster labels:" "SLC4A3 MUTATED"        
clus
  SLC4A3 MUTATED SLC4A3 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC4A3 MUTATED        1      0      0
  SLC4A3 WILD-TYPE      6      9      4
D27V2, multiclass
[1] "Remove cluster labels:" "SLC4A3 MUTATED"        
clus
  SLC4A3 MUTATED SLC4A3 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" "SLC4A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC4A3 MUTATED        2      8      3      5
  SLC4A3 WILD-TYPE     63    202     69    126
D27V3, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              8              202
  CLUS_3              3               69
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC4A3 MUTATED        3      8      7
  SLC4A3 WILD-TYPE    128    130    154
D27V4, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              8              130
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC4A3 MUTATED        1      5      3
  SLC4A3 WILD-TYPE     41     66     60
D27V5, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              5               66
  CLUS_3              3               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
  SLC4A3 MUTATED        3      2      3      1      0
  SLC4A3 WILD-TYPE     36     30     40     29     32
D27V6, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              2               30
  CLUS_3              3               40
  CLUS_4              1               29
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC4A3 MUTATED        2     10      6
  SLC4A3 WILD-TYPE    148    175    137
D27V7, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              2              148
  CLUS_2             10              175
  CLUS_3              6              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC4A3 MUTATED        0      6      5      1      2      2      2
  SLC4A3 WILD-TYPE     72    103     85     43     47     44     66
D27V8, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              6              103
  CLUS_3              5               85
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              2               66
[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
  SLC4A3 MUTATED        5     12      1
  SLC4A3 WILD-TYPE    170    199     89
D27V9, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              5              170
  CLUS_2             12              199
  CLUS_3              1               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
  SLC4A3 MUTATED        3      8      3      4
  SLC4A3 WILD-TYPE     67    178    128     85
D27V10, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              8              178
  CLUS_3              3              128
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC4A3 MUTATED        3     10      4
  SLC4A3 WILD-TYPE    138    172     85
D27V11, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              3              138
  CLUS_2             10              172
  CLUS_3              4               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
  SLC4A3 MUTATED        1     16      0
  SLC4A3 WILD-TYPE     93    217     85
D27V12, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              1               93
  CLUS_2             16              217
  CLUS_3              0               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"

Clustering(28) Variable = SP100 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SP100 MUTATED        0      0      0      0
  SP100 WILD-TYPE      5      7      5      3
D28V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP100 MUTATED        0      0      0
  SP100 WILD-TYPE      7      9      4
D28V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SP100 MUTATED        1      9      2      4
  SP100 WILD-TYPE     64    201     70    127
D28V3, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             9             201
  CLUS_3             2              70
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP100 MUTATED        4      6      5
  SP100 WILD-TYPE    127    132    156
D28V4, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             6             132
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP100 MUTATED        1      1      2
  SP100 WILD-TYPE     41     70     61
D28V5, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             2              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
  SP100 MUTATED        0      1      1      1      1
  SP100 WILD-TYPE     39     31     42     29     31
D28V6, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP100 MUTATED        0     13      3
  SP100 WILD-TYPE    150    172    140
D28V7, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             0             150
  CLUS_2            13             172
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SP100 MUTATED        0      5      5      2      1      3      0
  SP100 WILD-TYPE     72    104     85     42     48     43     68
D28V8, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             5             104
  CLUS_3             5              85
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             3              43
  CLUS_7             0              68
[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
  SP100 MUTATED        2      8      6
  SP100 WILD-TYPE    173    203     84
D28V9, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             8             203
  CLUS_3             6              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
  SP100 MUTATED        1     10      1      4
  SP100 WILD-TYPE     69    176    130     85
D28V10, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             1              69
  CLUS_2            10             176
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SP100 MUTATED        3      5      7
  SP100 WILD-TYPE    138    177     82
D28V11, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             7              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
  SP100 MUTATED        2     11      2
  SP100 WILD-TYPE     92    222     83
D28V12, multiclass
        clus
vv       SP100 MUTATED SP100 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            11             222
  CLUS_3             2              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"

Clustering(29) Variable = RPL5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL5 MUTATED        0      0      0      0
  RPL5 WILD-TYPE      5      7      5      3
D29V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        0      0      0
  RPL5 WILD-TYPE      7      9      4
D29V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL5 MUTATED        1      4      1      2
  RPL5 WILD-TYPE     64    206     71    129
D29V3, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            4            206
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        3      3      2
  RPL5 WILD-TYPE    128    135    159
D29V4, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            3            135
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        2      1      0
  RPL5 WILD-TYPE     40     70     63
D29V5, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1             70
  CLUS_3            0             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 CLUS_4 CLUS_5
  RPL5 MUTATED        0      0      0      1      2
  RPL5 WILD-TYPE     39     32     43     29     30
D29V6, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            0             43
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        3      2      3
  RPL5 WILD-TYPE    147    183    140
D29V7, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            2            183
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RPL5 MUTATED        1      1      2      2      0      1      1
  RPL5 WILD-TYPE     71    108     88     42     49     45     67
D29V8, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            1            108
  CLUS_3            2             88
  CLUS_4            2             42
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            1             67
[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
  RPL5 MUTATED        2      3      3
  RPL5 WILD-TYPE    173    208     87
D29V9, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            3            208
  CLUS_3            3             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
  RPL5 MUTATED        0      2      3      3
  RPL5 WILD-TYPE     70    184    128     86
D29V10, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            184
  CLUS_3            3            128
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        1      5      2
  RPL5 WILD-TYPE    140    177     87
D29V11, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            5            177
  CLUS_3            2             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
  RPL5 MUTATED        2      5      1
  RPL5 WILD-TYPE     92    228     84
D29V12, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            5            228
  CLUS_3            1             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"

Clustering(30) Variable = AACS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AACS MUTATED        0      0      0      0
  AACS WILD-TYPE      5      7      5      3
D30V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AACS MUTATED        0      0      0
  AACS WILD-TYPE      7      9      4
D30V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AACS MUTATED        2      7      2      7
  AACS WILD-TYPE     63    203     70    124
D30V3, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            2             63
  CLUS_2            7            203
  CLUS_3            2             70
  CLUS_4            7            124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AACS MUTATED        6      5      5
  AACS WILD-TYPE    125    133    156
D30V4, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            6            125
  CLUS_2            5            133
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AACS MUTATED        1      2      2
  AACS WILD-TYPE     41     69     61
D30V5, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            2             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
  AACS MUTATED        0      1      3      1      0
  AACS WILD-TYPE     39     31     40     29     32
D30V6, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AACS MUTATED        3      9      6
  AACS WILD-TYPE    147    176    137
D30V7, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            3            147
  CLUS_2            9            176
  CLUS_3            6            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AACS MUTATED        2      6      4      3      1      1      1
  AACS WILD-TYPE     70    103     86     41     48     45     67
D30V8, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            2             70
  CLUS_2            6            103
  CLUS_3            4             86
  CLUS_4            3             41
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            1             67
[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
  AACS MUTATED        6     11      1
  AACS WILD-TYPE    169    200     89
D30V9, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            6            169
  CLUS_2           11            200
  CLUS_3            1             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
  AACS MUTATED        3      7      4      4
  AACS WILD-TYPE     67    179    127     85
D30V10, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            3             67
  CLUS_2            7            179
  CLUS_3            4            127
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AACS MUTATED        7      7      2
  AACS WILD-TYPE    134    175     87
D30V11, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            7            134
  CLUS_2            7            175
  CLUS_3            2             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
  AACS MUTATED        3     10      3
  AACS WILD-TYPE     91    223     82
D30V12, multiclass
        clus
vv       AACS MUTATED AACS WILD-TYPE
  CLUS_1            3             91
  CLUS_2           10            223
  CLUS_3            3             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"

Clustering(31) Variable = ITGBL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGBL1 MUTATED        0      0      1      0
  ITGBL1 WILD-TYPE      5      7      4      3
D31V1, multiclass
[1] "Remove cluster labels:" "ITGBL1 MUTATED"        
clus
  ITGBL1 MUTATED ITGBL1 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGBL1 MUTATED        1      0      0
  ITGBL1 WILD-TYPE      6      9      4
D31V2, multiclass
[1] "Remove cluster labels:" "ITGBL1 MUTATED"        
clus
  ITGBL1 MUTATED ITGBL1 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" "ITGBL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGBL1 MUTATED        2      6      5      6
  ITGBL1 WILD-TYPE     63    204     67    125
D31V3, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6              204
  CLUS_3              5               67
  CLUS_4              6              125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGBL1 MUTATED        3      6      8
  ITGBL1 WILD-TYPE    128    132    153
D31V4, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              6              132
  CLUS_3              8              153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGBL1 MUTATED        1      1      2
  ITGBL1 WILD-TYPE     41     70     61
D31V5, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1               70
  CLUS_3              2               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
  ITGBL1 MUTATED        0      0      2      1      1
  ITGBL1 WILD-TYPE     39     32     41     29     31
D31V6, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGBL1 MUTATED        2     12      5
  ITGBL1 WILD-TYPE    148    173    138
D31V7, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              2              148
  CLUS_2             12              173
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ITGBL1 MUTATED        1      2      8      0      1      3      4
  ITGBL1 WILD-TYPE     71    107     82     44     48     43     64
D31V8, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              2              107
  CLUS_3              8               82
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              3               43
  CLUS_7              4               64
[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
  ITGBL1 MUTATED        2     14      3
  ITGBL1 WILD-TYPE    173    197     87
D31V9, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              2              173
  CLUS_2             14              197
  CLUS_3              3               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
  ITGBL1 MUTATED        2      9      1      7
  ITGBL1 WILD-TYPE     68    177    130     82
D31V10, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              9              177
  CLUS_3              1              130
  CLUS_4              7               82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGBL1 MUTATED        2     10      4
  ITGBL1 WILD-TYPE    139    172     85
D31V11, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              2              139
  CLUS_2             10              172
  CLUS_3              4               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
  ITGBL1 MUTATED        1     12      3
  ITGBL1 WILD-TYPE     93    221     82
D31V12, multiclass
        clus
vv       ITGBL1 MUTATED ITGBL1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2             12              221
  CLUS_3              3               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"

Clustering(32) Variable = NLRP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRP6 MUTATED        0      0      0      0
  NLRP6 WILD-TYPE      5      7      5      3
D32V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      0      0
  NLRP6 WILD-TYPE      7      9      4
D32V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRP6 MUTATED        0      3      4      3
  NLRP6 WILD-TYPE     65    207     68    128
D32V3, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             3             207
  CLUS_3             4              68
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        1      3      5
  NLRP6 WILD-TYPE    130    135    156
D32V4, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             3             135
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      0      2
  NLRP6 WILD-TYPE     42     71     61
D32V5, multiclass
[1] "Remove cluster labels:" "NLRP6 MUTATED"         
clus
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRP6 MUTATED        0      2      0      0      0
  NLRP6 WILD-TYPE     39     30     43     30     32
D32V6, multiclass
[1] "Remove cluster labels:" "NLRP6 MUTATED"         
clus
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        3      3      4
  NLRP6 WILD-TYPE    147    182    139
D32V7, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             3             182
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NLRP6 MUTATED        1      0      2      0      4      0      3
  NLRP6 WILD-TYPE     71    109     88     44     45     46     65
D32V8, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             0             109
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             4              45
  CLUS_6             0              46
  CLUS_7             3              65
[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
  NLRP6 MUTATED        1      7      2
  NLRP6 WILD-TYPE    174    204     88
D32V9, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             7             204
  CLUS_3             2              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
  NLRP6 MUTATED        1      5      0      4
  NLRP6 WILD-TYPE     69    181    131     85
D32V10, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             0             131
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        2      4      3
  NLRP6 WILD-TYPE    139    178     86
D32V11, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             3              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
  NLRP6 MUTATED        0      5      4
  NLRP6 WILD-TYPE     94    228     81
D32V12, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             4              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"

Clustering(33) Variable = STIM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STIM1 MUTATED        1      1      0      0
  STIM1 WILD-TYPE      4      6      5      3
D33V1, multiclass
[1] "Remove cluster labels:" "STIM1 MUTATED"         
clus
  STIM1 MUTATED STIM1 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STIM1 MUTATED        1      1      0
  STIM1 WILD-TYPE      6      8      4
D33V2, multiclass
[1] "Remove cluster labels:" "STIM1 MUTATED"         
clus
  STIM1 MUTATED STIM1 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STIM1 MUTATED        0      2      0      7
  STIM1 WILD-TYPE     65    208     72    124
D33V3, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             7             124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STIM1 MUTATED        2      3      3
  STIM1 WILD-TYPE    129    135    158
D33V4, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STIM1 MUTATED        0      1      1
  STIM1 WILD-TYPE     42     70     62
D33V5, multiclass
[1] "Remove cluster labels:" "STIM1 MUTATED"         
clus
  STIM1 MUTATED STIM1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7567 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STIM1 MUTATED        1      0      1      0      0
  STIM1 WILD-TYPE     38     32     42     30     32
D33V6, multiclass
[1] "Remove cluster labels:" "STIM1 MUTATED"         
clus
  STIM1 MUTATED STIM1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7567 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"STIM1 WILD-TYPE" "STIM1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STIM1 MUTATED        2      5      2
  STIM1 WILD-TYPE    148    180    141
D33V7, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STIM1 MUTATED        1      5      3      0      0      0      0
  STIM1 WILD-TYPE     71    104     87     44     49     46     68
D33V8, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             0              68
[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
  STIM1 MUTATED        2      7      0
  STIM1 WILD-TYPE    173    204     90
D33V9, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             7             204
  CLUS_3             0              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
  STIM1 MUTATED        2      5      0      2
  STIM1 WILD-TYPE     68    181    131     87
D33V10, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             181
  CLUS_3             0             131
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STIM1 MUTATED        1      5      1
  STIM1 WILD-TYPE    140    177     88
D33V11, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             5             177
  CLUS_3             1              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
  STIM1 MUTATED        1      5      1
  STIM1 WILD-TYPE     93    228     84
D33V12, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             5             228
  CLUS_3             1              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"

Clustering(34) Variable = NCKAP1L MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCKAP1L MUTATED        0      0      0      2
  NCKAP1L WILD-TYPE      5      7      5      1
D34V1, multiclass
[1] "Remove cluster labels:" "NCKAP1L MUTATED"       
clus
  NCKAP1L MUTATED NCKAP1L WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        0      0      2
  NCKAP1L WILD-TYPE      7      9      2
D34V2, multiclass
[1] "Remove cluster labels:" "NCKAP1L MUTATED"       
clus
  NCKAP1L MUTATED NCKAP1L WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"NCKAP1L WILD-TYPE" "NCKAP1L WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCKAP1L MUTATED        4      6      5      4
  NCKAP1L WILD-TYPE     61    204     67    127
D34V3, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               4                61
  CLUS_2               6               204
  CLUS_3               5                67
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        2      7      7
  NCKAP1L WILD-TYPE    129    131    154
D34V4, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               2               129
  CLUS_2               7               131
  CLUS_3               7               154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        2      3      4
  NCKAP1L WILD-TYPE     40     68     59
D34V5, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               2                40
  CLUS_2               3                68
  CLUS_3               4                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 CLUS_4 CLUS_5
  NCKAP1L MUTATED        1      5      1      1      1
  NCKAP1L WILD-TYPE     38     27     42     29     31
D34V6, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               1                38
  CLUS_2               5                27
  CLUS_3               1                42
  CLUS_4               1                29
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        2      7     10
  NCKAP1L WILD-TYPE    148    178    133
D34V7, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               2               148
  CLUS_2               7               178
  CLUS_3              10               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NCKAP1L MUTATED        0      3      6      3      3      2      2
  NCKAP1L WILD-TYPE     72    106     84     41     46     44     66
D34V8, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               6                84
  CLUS_4               3                41
  CLUS_5               3                46
  CLUS_6               2                44
  CLUS_7               2                66
[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
  NCKAP1L MUTATED        4     14      1
  NCKAP1L WILD-TYPE    171    197     89
D34V9, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               4               171
  CLUS_2              14               197
  CLUS_3               1                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
  NCKAP1L MUTATED        2      7      2      8
  NCKAP1L WILD-TYPE     68    179    129     81
D34V10, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               2                68
  CLUS_2               7               179
  CLUS_3               2               129
  CLUS_4               8                81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        5      5      5
  NCKAP1L WILD-TYPE    136    177     84
D34V11, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               5               136
  CLUS_2               5               177
  CLUS_3               5                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
  NCKAP1L MUTATED        3     10      2
  NCKAP1L WILD-TYPE     91    223     83
D34V12, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               3                91
  CLUS_2              10               223
  CLUS_3               2                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"

Clustering(35) Variable = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        0      0      1      1
  CTNNB1 WILD-TYPE      5      7      4      2
D35V1, multiclass
[1] "Remove cluster labels:" "CTNNB1 MUTATED"        
clus
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        1      0      1
  CTNNB1 WILD-TYPE      6      9      3
D35V2, multiclass
[1] "Remove cluster labels:" "CTNNB1 MUTATED"        
clus
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"CTNNB1 WILD-TYPE" "CTNNB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        5      8      2      4
  CTNNB1 WILD-TYPE     60    202     70    127
D35V3, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              5               60
  CLUS_2              8              202
  CLUS_3              2               70
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      6      8
  CTNNB1 WILD-TYPE    129    132    153
D35V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              6              132
  CLUS_3              8              153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        2      1      4
  CTNNB1 WILD-TYPE     40     70     59
D35V5, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1               70
  CLUS_3              4               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 CLUS_4 CLUS_5
  CTNNB1 MUTATED        0      4      1      1      1
  CTNNB1 WILD-TYPE     39     28     42     29     31
D35V6, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              4               28
  CLUS_3              1               42
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        4      6      9
  CTNNB1 WILD-TYPE    146    179    134
D35V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4              146
  CLUS_2              6              179
  CLUS_3              9              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CTNNB1 MUTATED        4      2      5      4      1      1      2
  CTNNB1 WILD-TYPE     68    107     85     40     48     45     66
D35V8, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               68
  CLUS_2              2              107
  CLUS_3              5               85
  CLUS_4              4               40
  CLUS_5              1               48
  CLUS_6              1               45
  CLUS_7              2               66
[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        6     13      0
  CTNNB1 WILD-TYPE    169    198     90
D35V9, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              6              169
  CLUS_2             13              198
  CLUS_3              0               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
  CTNNB1 MUTATED        2      8      4      5
  CTNNB1 WILD-TYPE     68    178    127     84
D35V10, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              8              178
  CLUS_3              4              127
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      8      1
  CTNNB1 WILD-TYPE    139    174     88
D35V11, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              8              174
  CLUS_3              1               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
  CTNNB1 MUTATED        3      7      1
  CTNNB1 WILD-TYPE     91    226     84
D35V12, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3               91
  CLUS_2              7              226
  CLUS_3              1               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"

Clustering(36) Variable = PLEKHB2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHB2 MUTATED        0      0      0      0
  PLEKHB2 WILD-TYPE      5      7      5      3
D36V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        0      0      0
  PLEKHB2 WILD-TYPE      7      9      4
D36V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHB2 MUTATED        1      1      4      3
  PLEKHB2 WILD-TYPE     64    209     68    128
D36V3, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               1               209
  CLUS_3               4                68
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        1      3      5
  PLEKHB2 WILD-TYPE    130    135    156
D36V4, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               3               135
  CLUS_3               5               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        0      2      1
  PLEKHB2 WILD-TYPE     42     69     62
D36V5, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2                69
  CLUS_3               1                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHB2 MUTATED        0      0      2      1      0
  PLEKHB2 WILD-TYPE     39     32     41     29     32
D36V6, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               0                32
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        1      4      4
  PLEKHB2 WILD-TYPE    149    181    139
D36V7, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               4               181
  CLUS_3               4               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PLEKHB2 MUTATED        0      4      3      0      1      1      0
  PLEKHB2 WILD-TYPE     72    105     87     44     48     45     68
D36V8, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               4               105
  CLUS_3               3                87
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               0                68
[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
  PLEKHB2 MUTATED        1      7      1
  PLEKHB2 WILD-TYPE    174    204     89
D36V9, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               7               204
  CLUS_3               1                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
  PLEKHB2 MUTATED        0      5      0      4
  PLEKHB2 WILD-TYPE     70    181    131     85
D36V10, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               5               181
  CLUS_3               0               131
  CLUS_4               4                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        2      5      2
  PLEKHB2 WILD-TYPE    139    177     87
D36V11, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               5               177
  CLUS_3               2                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
  PLEKHB2 MUTATED        0      9      0
  PLEKHB2 WILD-TYPE     94    224     85
D36V12, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               9               224
  CLUS_3               0                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"

Clustering(37) Variable = G3BP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  G3BP1 MUTATED        0      0      1      1
  G3BP1 WILD-TYPE      5      7      4      2
D37V1, multiclass
[1] "Remove cluster labels:" "G3BP1 MUTATED"         
clus
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2665 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        1      0      1
  G3BP1 WILD-TYPE      6      9      3
D37V2, multiclass
[1] "Remove cluster labels:" "G3BP1 MUTATED"         
clus
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2665 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"G3BP1 WILD-TYPE" "G3BP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  G3BP1 MUTATED        3      4      0      1
  G3BP1 WILD-TYPE     62    206     72    130
D37V3, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             4             206
  CLUS_3             0              72
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        2      1      1
  G3BP1 WILD-TYPE    129    137    160
D37V4, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             1             137
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        1      1      2
  G3BP1 WILD-TYPE     41     70     61
D37V5, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             2              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
  G3BP1 MUTATED        1      2      1      0      0
  G3BP1 WILD-TYPE     38     30     42     30     32
D37V6, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              30
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        2      2      4
  G3BP1 WILD-TYPE    148    183    139
D37V7, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             2             183
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  G3BP1 MUTATED        0      3      2      1      1      0      1
  G3BP1 WILD-TYPE     72    106     88     43     48     46     67
D37V8, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  G3BP1 MUTATED        3      3      2
  G3BP1 WILD-TYPE    172    208     88
D37V9, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             3             208
  CLUS_3             2              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
  G3BP1 MUTATED        1      2      3      2
  G3BP1 WILD-TYPE     69    184    128     87
D37V10, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             3             128
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        2      1      1
  G3BP1 WILD-TYPE    139    181     88
D37V11, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             1             181
  CLUS_3             1              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
  G3BP1 MUTATED        0      3      1
  G3BP1 WILD-TYPE     94    230     84
D37V12, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(38) Variable = TLR9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TLR9 MUTATED        0      0      0      1
  TLR9 WILD-TYPE      5      7      5      2
D38V1, multiclass
[1] "Remove cluster labels:" "TLR9 MUTATED"          
clus
  TLR9 MUTATED TLR9 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1592     TCGA-55-1595     TCGA-64-1676 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-64-1677     TCGA-67-3772     TCGA-67-3773 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        0      0      1
  TLR9 WILD-TYPE      7      9      3
D38V2, multiclass
[1] "Remove cluster labels:" "TLR9 MUTATED"          
clus
  TLR9 MUTATED TLR9 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1592     TCGA-55-1595     TCGA-64-1676 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-64-1677     TCGA-67-3772     TCGA-67-3773 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TLR9 MUTATED        2      4      2      2
  TLR9 WILD-TYPE     63    206     70    129
D38V3, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4            206
  CLUS_3            2             70
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        4      3      2
  TLR9 WILD-TYPE    127    135    159
D38V4, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            4            127
  CLUS_2            3            135
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        0      0      2
  TLR9 WILD-TYPE     42     71     61
D38V5, multiclass
[1] "Remove cluster labels:" "TLR9 MUTATED"          
clus
  TLR9 MUTATED TLR9 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4488     TCGA-49-4494 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TLR9 MUTATED        0      1      1      0      0
  TLR9 WILD-TYPE     39     31     42     30     32
D38V6, multiclass
[1] "Remove cluster labels:" "TLR9 MUTATED"          
clus
  TLR9 MUTATED TLR9 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4488     TCGA-49-4494 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"TLR9 WILD-TYPE" "TLR9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        1      4      5
  TLR9 WILD-TYPE    149    181    138
D38V7, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            4            181
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TLR9 MUTATED        1      0      3      1      2      2      1
  TLR9 WILD-TYPE     71    109     87     43     47     44     67
D38V8, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            0            109
  CLUS_3            3             87
  CLUS_4            1             43
  CLUS_5            2             47
  CLUS_6            2             44
  CLUS_7            1             67
[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
  TLR9 MUTATED        3      7      0
  TLR9 WILD-TYPE    172    204     90
D38V9, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            3            172
  CLUS_2            7            204
  CLUS_3            0             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
  TLR9 MUTATED        0      3      2      5
  TLR9 WILD-TYPE     70    183    129     84
D38V10, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            183
  CLUS_3            2            129
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TLR9 MUTATED        1      8      0
  TLR9 WILD-TYPE    140    174     89
D38V11, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            8            174
  CLUS_3            0             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
  TLR9 MUTATED        2      6      1
  TLR9 WILD-TYPE     92    227     84
D38V12, multiclass
        clus
vv       TLR9 MUTATED TLR9 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            6            227
  CLUS_3            1             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"

Clustering(39) Variable = PDE6A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDE6A MUTATED        0      0      0      1
  PDE6A WILD-TYPE      5      7      5      2
D39V1, multiclass
[1] "Remove cluster labels:" "PDE6A MUTATED"         
clus
  PDE6A MUTATED PDE6A WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE6A MUTATED        0      0      1
  PDE6A WILD-TYPE      7      9      3
D39V2, multiclass
[1] "Remove cluster labels:" "PDE6A MUTATED"         
clus
  PDE6A MUTATED PDE6A WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PDE6A WILD-TYPE" "PDE6A WILD-TYPE" "PDE6A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDE6A MUTATED        3      4      4      5
  PDE6A WILD-TYPE     62    206     68    126
D39V3, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             3              62
  CLUS_2             4             206
  CLUS_3             4              68
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE6A MUTATED        2      6      4
  PDE6A WILD-TYPE    129    132    157
D39V4, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             2             129
  CLUS_2             6             132
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE6A MUTATED        1      1      1
  PDE6A WILD-TYPE     41     70     62
D39V5, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PDE6A MUTATED        1      1      0      0      1
  PDE6A WILD-TYPE     38     31     43     30     31
D39V6, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE6A MUTATED        1      6      9
  PDE6A WILD-TYPE    149    179    134
D39V7, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             1             149
  CLUS_2             6             179
  CLUS_3             9             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PDE6A MUTATED        2      1      4      1      5      3      0
  PDE6A WILD-TYPE     70    108     86     43     44     43     68
D39V8, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             2              70
  CLUS_2             1             108
  CLUS_3             4              86
  CLUS_4             1              43
  CLUS_5             5              44
  CLUS_6             3              43
  CLUS_7             0              68
[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
  PDE6A MUTATED        1     11      3
  PDE6A WILD-TYPE    174    200     87
D39V9, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             1             174
  CLUS_2            11             200
  CLUS_3             3              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
  PDE6A MUTATED        1      6      1      7
  PDE6A WILD-TYPE     69    180    130     82
D39V10, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             180
  CLUS_3             1             130
  CLUS_4             7              82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE6A MUTATED        3      7      2
  PDE6A WILD-TYPE    138    175     87
D39V11, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             3             138
  CLUS_2             7             175
  CLUS_3             2              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
  PDE6A MUTATED        2      9      1
  PDE6A WILD-TYPE     92    224     84
D39V12, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             2              92
  CLUS_2             9             224
  CLUS_3             1              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"

Clustering(40) Variable = DUSP22 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DUSP22 MUTATED        0      1      1      1
  DUSP22 WILD-TYPE      5      6      4      2
D40V1, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              0                5
  CLUS_2              1                6
  CLUS_3              1                4
  CLUS_4              1                2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP22 MUTATED        2      0      1
  DUSP22 WILD-TYPE      5      9      3
D40V2, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              2                5
  CLUS_2              0                9
  CLUS_3              1                3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DUSP22 MUTATED        2      7      3      5
  DUSP22 WILD-TYPE     63    203     69    126
D40V3, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              7              203
  CLUS_3              3               69
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP22 MUTATED        4      3      8
  DUSP22 WILD-TYPE    127    135    153
D40V4, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              3              135
  CLUS_3              8              153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP22 MUTATED        2      3      4
  DUSP22 WILD-TYPE     40     68     59
D40V5, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3               68
  CLUS_3              4               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 CLUS_4 CLUS_5
  DUSP22 MUTATED        1      1      2      1      4
  DUSP22 WILD-TYPE     38     31     41     29     28
D40V6, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              4               28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP22 MUTATED        3     12      2
  DUSP22 WILD-TYPE    147    173    141
D40V7, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              3              147
  CLUS_2             12              173
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DUSP22 MUTATED        1      7      5      1      0      0      3
  DUSP22 WILD-TYPE     71    102     85     43     49     46     65
D40V8, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              7              102
  CLUS_3              5               85
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              3               65
[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
  DUSP22 MUTATED        4     12      1
  DUSP22 WILD-TYPE    171    199     89
D40V9, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              4              171
  CLUS_2             12              199
  CLUS_3              1               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
  DUSP22 MUTATED        3      7      2      5
  DUSP22 WILD-TYPE     67    179    129     84
D40V10, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              7              179
  CLUS_3              2              129
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DUSP22 MUTATED        6      5      3
  DUSP22 WILD-TYPE    135    177     86
D40V11, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              6              135
  CLUS_2              5              177
  CLUS_3              3               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
  DUSP22 MUTATED        3      9      2
  DUSP22 WILD-TYPE     91    224     83
D40V12, multiclass
        clus
vv       DUSP22 MUTATED DUSP22 WILD-TYPE
  CLUS_1              3               91
  CLUS_2              9              224
  CLUS_3              2               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"

Clustering(41) Variable = MMP19 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP19 MUTATED        0      0      0      0
  MMP19 WILD-TYPE      5      7      5      3
D41V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP19 MUTATED        0      0      0
  MMP19 WILD-TYPE      7      9      4
D41V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP19 MUTATED        1      5      3      1
  MMP19 WILD-TYPE     64    205     69    130
D41V3, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             3              69
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP19 MUTATED        3      5      2
  MMP19 WILD-TYPE    128    133    159
D41V4, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             5             133
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP19 MUTATED        0      1      2
  MMP19 WILD-TYPE     42     70     61
D41V5, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             2              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
  MMP19 MUTATED        0      1      1      0      1
  MMP19 WILD-TYPE     39     31     42     30     31
D41V6, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP19 MUTATED        3      3      3
  MMP19 WILD-TYPE    147    182    140
D41V7, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             3             182
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MMP19 MUTATED        1      1      1      0      2      1      3
  MMP19 WILD-TYPE     71    108     89     44     47     45     65
D41V8, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             3              65
[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
  MMP19 MUTATED        3      4      3
  MMP19 WILD-TYPE    172    207     87
D41V9, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             4             207
  CLUS_3             3              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
  MMP19 MUTATED        2      2      3      3
  MMP19 WILD-TYPE     68    184    128     86
D41V10, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             184
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP19 MUTATED        3      3      4
  MMP19 WILD-TYPE    138    179     85
D41V11, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             4              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
  MMP19 MUTATED        2      6      2
  MMP19 WILD-TYPE     92    227     83
D41V12, multiclass
        clus
vv       MMP19 MUTATED MMP19 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             6             227
  CLUS_3             2              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"

Clustering(42) Variable = APC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED        0      0      0      0
  APC WILD-TYPE      5      7      5      3
D42V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        0      0      0
  APC WILD-TYPE      7      9      4
D42V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED        3      8      4      5
  APC WILD-TYPE     62    202     68    126
D42V3, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           3            62
  CLUS_2           8           202
  CLUS_3           4            68
  CLUS_4           5           126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        5      6      4
  APC WILD-TYPE    126    132    157
D42V4, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           5           126
  CLUS_2           6           132
  CLUS_3           4           157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        1      3      3
  APC WILD-TYPE     41     68     60
D42V5, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           1            41
  CLUS_2           3            68
  CLUS_3           3            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
  APC MUTATED        2      1      2      1      1
  APC WILD-TYPE     37     31     41     29     31
D42V6, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           2            37
  CLUS_2           1            31
  CLUS_3           2            41
  CLUS_4           1            29
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        2     11      7
  APC WILD-TYPE    148    174    136
D42V7, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           2           148
  CLUS_2          11           174
  CLUS_3           7           136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  APC MUTATED        1      4      7      2      1      4      1
  APC WILD-TYPE     71    105     83     42     48     42     67
D42V8, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           1            71
  CLUS_2           4           105
  CLUS_3           7            83
  CLUS_4           2            42
  CLUS_5           1            48
  CLUS_6           4            42
  CLUS_7           1            67
[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
  APC MUTATED        5     14      1
  APC WILD-TYPE    170    197     89
D42V9, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           5           170
  CLUS_2          14           197
  CLUS_3           1            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
  APC MUTATED        0     11      3      6
  APC WILD-TYPE     70    175    128     83
D42V10, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           0            70
  CLUS_2          11           175
  CLUS_3           3           128
  CLUS_4           6            83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        4      6      4
  APC WILD-TYPE    137    176     85
D42V11, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           4           137
  CLUS_2           6           176
  CLUS_3           4            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
  APC MUTATED        2     11      1
  APC WILD-TYPE     92    222     84
D42V12, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           2            92
  CLUS_2          11           222
  CLUS_3           1            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"

Clustering(43) Variable = STRA8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STRA8 MUTATED        0      0      0      0
  STRA8 WILD-TYPE      5      7      5      3
D43V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        0      0      0
  STRA8 WILD-TYPE      7      9      4
D43V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STRA8 MUTATED        2      0      4      2
  STRA8 WILD-TYPE     63    210     68    129
D43V3, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             0             210
  CLUS_3             4              68
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        0      4      1
  STRA8 WILD-TYPE    131    134    160
D43V4, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             4             134
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        0      0      2
  STRA8 WILD-TYPE     42     71     61
D43V5, multiclass
[1] "Remove cluster labels:" "STRA8 MUTATED"         
clus
  STRA8 MUTATED STRA8 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7671      TCGA-44-7672 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7537 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STRA8 MUTATED        0      1      0      1      0
  STRA8 WILD-TYPE     39     31     43     29     32
D43V6, multiclass
[1] "Remove cluster labels:" "STRA8 MUTATED"         
clus
  STRA8 MUTATED STRA8 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7671      TCGA-44-7672 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7537 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"STRA8 WILD-TYPE" "STRA8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        0      5      3
  STRA8 WILD-TYPE    150    180    140
D43V7, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             5             180
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STRA8 MUTATED        0      1      4      0      3      0      0
  STRA8 WILD-TYPE     72    108     86     44     46     46     68
D43V8, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             0              46
  CLUS_7             0              68
[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
  STRA8 MUTATED        0      7      0
  STRA8 WILD-TYPE    175    204     90
D43V9, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             7             204
  CLUS_3             0              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
  STRA8 MUTATED        0      4      0      3
  STRA8 WILD-TYPE     70    182    131     86
D43V10, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        3      2      0
  STRA8 WILD-TYPE    138    180     89
D43V11, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             2             180
  CLUS_3             0              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
  STRA8 MUTATED        0      5      0
  STRA8 WILD-TYPE     94    228     85
D43V12, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             0              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"

Clustering(44) Variable = A2M MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  A2M MUTATED        1      1      0      0
  A2M WILD-TYPE      4      6      5      3
D44V1, multiclass
[1] "Remove cluster labels:" "A2M MUTATED"           
clus
  A2M MUTATED A2M WILD-TYPE 
            2            18 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1677 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
   TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  A2M MUTATED        0      1      1
  A2M WILD-TYPE      7      8      3
D44V2, multiclass
[1] "Remove cluster labels:" "A2M MUTATED"           
clus
  A2M MUTATED A2M WILD-TYPE 
            2            18 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1677 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
   TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"A2M WILD-TYPE" "A2M WILD-TYPE" "A2M WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  A2M MUTATED        3      4      5      8
  A2M WILD-TYPE     62    206     67    123
D44V3, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           3            62
  CLUS_2           4           206
  CLUS_3           5            67
  CLUS_4           8           123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  A2M MUTATED        3      6      7
  A2M WILD-TYPE    128    132    154
D44V4, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           3           128
  CLUS_2           6           132
  CLUS_3           7           154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  A2M MUTATED        0      5      4
  A2M WILD-TYPE     42     66     59
D44V5, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           0            42
  CLUS_2           5            66
  CLUS_3           4            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 CLUS_4 CLUS_5
  A2M MUTATED        3      1      2      2      1
  A2M WILD-TYPE     36     31     41     28     31
D44V6, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           3            36
  CLUS_2           1            31
  CLUS_3           2            41
  CLUS_4           2            28
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  A2M MUTATED        2     12      6
  A2M WILD-TYPE    148    173    137
D44V7, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           2           148
  CLUS_2          12           173
  CLUS_3           6           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  A2M MUTATED        0      6      6      0      4      3      1
  A2M WILD-TYPE     72    103     84     44     45     43     67
D44V8, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           0            72
  CLUS_2           6           103
  CLUS_3           6            84
  CLUS_4           0            44
  CLUS_5           4            45
  CLUS_6           3            43
  CLUS_7           1            67
[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
  A2M MUTATED        1     12      6
  A2M WILD-TYPE    174    199     84
D44V9, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           1           174
  CLUS_2          12           199
  CLUS_3           6            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
  A2M MUTATED        1     11      2      5
  A2M WILD-TYPE     69    175    129     84
D44V10, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           1            69
  CLUS_2          11           175
  CLUS_3           2           129
  CLUS_4           5            84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  A2M MUTATED        3      7      6
  A2M WILD-TYPE    138    175     83
D44V11, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           3           138
  CLUS_2           7           175
  CLUS_3           6            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
  A2M MUTATED        1     13      2
  A2M WILD-TYPE     93    220     83
D44V12, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           1            93
  CLUS_2          13           220
  CLUS_3           2            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"

Clustering(45) Variable = CD244 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD244 MUTATED        0      1      0      0
  CD244 WILD-TYPE      5      6      5      3
D45V1, multiclass
[1] "Remove cluster labels:" "CD244 MUTATED"         
clus
  CD244 MUTATED CD244 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        1      0      0
  CD244 WILD-TYPE      6      9      4
D45V2, multiclass
[1] "Remove cluster labels:" "CD244 MUTATED"         
clus
  CD244 MUTATED CD244 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"CD244 WILD-TYPE" "CD244 WILD-TYPE" "CD244 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD244 MUTATED        0      4      3      5
  CD244 WILD-TYPE     65    206     69    126
D45V3, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             3              69
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        4      5      3
  CD244 WILD-TYPE    127    133    158
D45V4, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             5             133
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        0      1      2
  CD244 WILD-TYPE     42     70     61
D45V5, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             2              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
  CD244 MUTATED        1      0      0      1      1
  CD244 WILD-TYPE     38     32     43     29     31
D45V6, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        2      7      3
  CD244 WILD-TYPE    148    178    140
D45V7, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             7             178
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CD244 MUTATED        0      2      5      1      0      2      2
  CD244 WILD-TYPE     72    107     85     43     49     44     66
D45V8, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             5              85
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             2              44
  CLUS_7             2              66
[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
  CD244 MUTATED        3      9      0
  CD244 WILD-TYPE    172    202     90
D45V9, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             9             202
  CLUS_3             0              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
  CD244 MUTATED        3      2      1      6
  CD244 WILD-TYPE     67    184    130     83
D45V10, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             184
  CLUS_3             1             130
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        4      5      2
  CD244 WILD-TYPE    137    177     87
D45V11, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             5             177
  CLUS_3             2              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
  CD244 MUTATED        1      8      2
  CD244 WILD-TYPE     93    225     83
D45V12, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             8             225
  CLUS_3             2              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"

Clustering(46) Variable = SRPX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRPX MUTATED        1      0      0      0
  SRPX WILD-TYPE      4      7      5      3
D46V1, multiclass
[1] "Remove cluster labels:" "SRPX MUTATED"          
clus
  SRPX MUTATED SRPX WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRPX MUTATED        0      1      0
  SRPX WILD-TYPE      7      8      4
D46V2, multiclass
[1] "Remove cluster labels:" "SRPX MUTATED"          
clus
  SRPX MUTATED SRPX WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"SRPX WILD-TYPE" "SRPX WILD-TYPE" "SRPX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRPX MUTATED        2      6      4      4
  SRPX WILD-TYPE     63    204     68    127
D46V3, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            2             63
  CLUS_2            6            204
  CLUS_3            4             68
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRPX MUTATED        4      5      4
  SRPX WILD-TYPE    127    133    157
D46V4, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            4            127
  CLUS_2            5            133
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRPX MUTATED        2      2      5
  SRPX WILD-TYPE     40     69     58
D46V5, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2             69
  CLUS_3            5             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRPX MUTATED        0      0      4      2      3
  SRPX WILD-TYPE     39     32     39     28     29
D46V6, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            4             39
  CLUS_4            2             28
  CLUS_5            3             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRPX MUTATED        6      5      5
  SRPX WILD-TYPE    144    180    138
D46V7, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            6            144
  CLUS_2            5            180
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SRPX MUTATED        3      5      2      0      3      1      2
  SRPX WILD-TYPE     69    104     88     44     46     45     66
D46V8, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            3             69
  CLUS_2            5            104
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            3             46
  CLUS_6            1             45
  CLUS_7            2             66
[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
  SRPX MUTATED        3      9      4
  SRPX WILD-TYPE    172    202     86
D46V9, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            3            172
  CLUS_2            9            202
  CLUS_3            4             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
  SRPX MUTATED        2      9      2      3
  SRPX WILD-TYPE     68    177    129     86
D46V10, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            2             68
  CLUS_2            9            177
  CLUS_3            2            129
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRPX MUTATED        4      6      2
  SRPX WILD-TYPE    137    176     87
D46V11, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            4            137
  CLUS_2            6            176
  CLUS_3            2             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
  SRPX MUTATED        1      7      4
  SRPX WILD-TYPE     93    226     81
D46V12, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            1             93
  CLUS_2            7            226
  CLUS_3            4             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"

Clustering(47) Variable = GAGE2D MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAGE2D MUTATED        0      0      0      1
  GAGE2D WILD-TYPE      5      7      5      2
D47V1, multiclass
[1] "Remove cluster labels:" "GAGE2D MUTATED"        
clus
  GAGE2D MUTATED GAGE2D WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2D MUTATED        0      0      1
  GAGE2D WILD-TYPE      7      9      3
D47V2, multiclass
[1] "Remove cluster labels:" "GAGE2D MUTATED"        
clus
  GAGE2D MUTATED GAGE2D WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" "GAGE2D WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAGE2D MUTATED        0      2      2      1
  GAGE2D WILD-TYPE     65    208     70    130
D47V3, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0               65
  CLUS_2              2              208
  CLUS_3              2               70
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2D MUTATED        0      1      2
  GAGE2D WILD-TYPE    131    137    159
D47V4, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0              131
  CLUS_2              1              137
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2D MUTATED        0      1      2
  GAGE2D WILD-TYPE     42     70     61
D47V5, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1               70
  CLUS_3              2               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
  GAGE2D MUTATED        1      0      0      2      0
  GAGE2D WILD-TYPE     38     32     43     28     32
D47V6, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              0               43
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2D MUTATED        0      3      2
  GAGE2D WILD-TYPE    150    182    141
D47V7, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0              150
  CLUS_2              3              182
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GAGE2D MUTATED        0      2      1      1      0      1      0
  GAGE2D WILD-TYPE     72    107     89     43     49     45     68
D47V8, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              1               89
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              0               68
[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
  GAGE2D MUTATED        0      3      2
  GAGE2D WILD-TYPE    175    208     88
D47V9, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0              175
  CLUS_2              3              208
  CLUS_3              2               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
  GAGE2D MUTATED        0      2      1      2
  GAGE2D WILD-TYPE     70    184    130     87
D47V10, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0               70
  CLUS_2              2              184
  CLUS_3              1              130
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2D MUTATED        1      2      0
  GAGE2D WILD-TYPE    140    180     89
D47V11, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              1              140
  CLUS_2              2              180
  CLUS_3              0               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
  GAGE2D MUTATED        0      2      1
  GAGE2D WILD-TYPE     94    231     84
D47V12, multiclass
        clus
vv       GAGE2D MUTATED GAGE2D WILD-TYPE
  CLUS_1              0               94
  CLUS_2              2              231
  CLUS_3              1               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"

Clustering(48) Variable = ADNP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADNP2 MUTATED        0      1      0      1
  ADNP2 WILD-TYPE      5      6      5      2
D48V1, multiclass
[1] "Remove cluster labels:" "ADNP2 MUTATED"         
clus
  ADNP2 MUTATED ADNP2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-35-4122      TCGA-35-4123 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        0      1      1
  ADNP2 WILD-TYPE      7      8      3
D48V2, multiclass
[1] "Remove cluster labels:" "ADNP2 MUTATED"         
clus
  ADNP2 MUTATED ADNP2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-35-4122      TCGA-35-4123 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ADNP2 WILD-TYPE" "ADNP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADNP2 MUTATED        1     10      2     11
  ADNP2 WILD-TYPE     64    200     70    120
D48V3, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             1              64
  CLUS_2            10             200
  CLUS_3             2              70
  CLUS_4            11             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        7      4     10
  ADNP2 WILD-TYPE    124    134    151
D48V4, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             7             124
  CLUS_2             4             134
  CLUS_3            10             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        3      3      4
  ADNP2 WILD-TYPE     39     68     59
D48V5, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             3              68
  CLUS_3             4              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 CLUS_4 CLUS_5
  ADNP2 MUTATED        3      1      2      1      3
  ADNP2 WILD-TYPE     36     31     41     29     29
D48V6, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        5     12      7
  ADNP2 WILD-TYPE    145    173    136
D48V7, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             5             145
  CLUS_2            12             173
  CLUS_3             7             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADNP2 MUTATED        3      7      7      1      1      2      3
  ADNP2 WILD-TYPE     69    102     83     43     48     44     65
D48V8, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             7             102
  CLUS_3             7              83
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             2              44
  CLUS_7             3              65
[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
  ADNP2 MUTATED        4     16      3
  ADNP2 WILD-TYPE    171    195     87
D48V9, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2            16             195
  CLUS_3             3              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
  ADNP2 MUTATED        3      9      5      6
  ADNP2 WILD-TYPE     67    177    126     83
D48V10, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             9             177
  CLUS_3             5             126
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADNP2 MUTATED        4     13      3
  ADNP2 WILD-TYPE    137    169     86
D48V11, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             4             137
  CLUS_2            13             169
  CLUS_3             3              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
  ADNP2 MUTATED        2     13      5
  ADNP2 WILD-TYPE     92    220     80
D48V12, multiclass
        clus
vv       ADNP2 MUTATED ADNP2 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            13             220
  CLUS_3             5              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"

Clustering(49) Variable = GLDC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLDC MUTATED        0      2      0      0
  GLDC WILD-TYPE      5      5      5      3
D49V1, multiclass
[1] "Remove cluster labels:" "GLDC MUTATED"          
clus
  GLDC MUTATED GLDC WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3919     TCGA-44-4112     TCGA-55-1592 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-55-1595     TCGA-64-1676     TCGA-64-1677     TCGA-67-3771 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDC MUTATED        1      1      0
  GLDC WILD-TYPE      6      8      4
D49V2, multiclass
[1] "Remove cluster labels:" "GLDC MUTATED"          
clus
  GLDC MUTATED GLDC WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3919     TCGA-44-4112     TCGA-55-1592 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-55-1595     TCGA-64-1676     TCGA-64-1677     TCGA-67-3771 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" "GLDC WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"GLDC WILD-TYPE" "GLDC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLDC MUTATED        2      8      5      6
  GLDC WILD-TYPE     63    202     67    125
D49V3, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            2             63
  CLUS_2            8            202
  CLUS_3            5             67
  CLUS_4            6            125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDC MUTATED        3      8      9
  GLDC WILD-TYPE    128    130    152
D49V4, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            3            128
  CLUS_2            8            130
  CLUS_3            9            152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDC MUTATED        1      3      3
  GLDC WILD-TYPE     41     68     60
D49V5, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3             68
  CLUS_3            3             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
  GLDC MUTATED        2      2      1      2      0
  GLDC WILD-TYPE     37     30     42     28     32
D49V6, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            2             37
  CLUS_2            2             30
  CLUS_3            1             42
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDC MUTATED        2     12      7
  GLDC WILD-TYPE    148    173    136
D49V7, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            2            148
  CLUS_2           12            173
  CLUS_3            7            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GLDC MUTATED        1      7      5      1      3      3      1
  GLDC WILD-TYPE     71    102     85     43     46     43     67
D49V8, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            1             71
  CLUS_2            7            102
  CLUS_3            5             85
  CLUS_4            1             43
  CLUS_5            3             46
  CLUS_6            3             43
  CLUS_7            1             67
[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
  GLDC MUTATED        4     15      2
  GLDC WILD-TYPE    171    196     88
D49V9, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            4            171
  CLUS_2           15            196
  CLUS_3            2             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
  GLDC MUTATED        3      7      2      9
  GLDC WILD-TYPE     67    179    129     80
D49V10, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            3             67
  CLUS_2            7            179
  CLUS_3            2            129
  CLUS_4            9             80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GLDC MUTATED        7      6      5
  GLDC WILD-TYPE    134    176     84
D49V11, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            7            134
  CLUS_2            6            176
  CLUS_3            5             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
  GLDC MUTATED        3     12      3
  GLDC WILD-TYPE     91    221     82
D49V12, multiclass
        clus
vv       GLDC MUTATED GLDC WILD-TYPE
  CLUS_1            3             91
  CLUS_2           12            221
  CLUS_3            3             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"

Clustering(50) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        0      1      0      1
  PIK3CA WILD-TYPE      5      6      5      2
D50V1, multiclass
[1] "Remove cluster labels:" "PIK3CA MUTATED"        
clus
  PIK3CA MUTATED PIK3CA WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4250       TCGA-35-4122       TCGA-35-4123 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-67-3771 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      1      1
  PIK3CA WILD-TYPE      7      8      3
D50V2, multiclass
[1] "Remove cluster labels:" "PIK3CA MUTATED"        
clus
  PIK3CA MUTATED PIK3CA WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4250       TCGA-35-4122       TCGA-35-4123 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-67-3771 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        2     15      6      5
  PIK3CA WILD-TYPE     63    195     66    126
D50V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               63
  CLUS_2             15              195
  CLUS_3              6               66
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10      9      6
  PIK3CA WILD-TYPE    121    129    155
D50V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             10              121
  CLUS_2              9              129
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      8
  PIK3CA WILD-TYPE     39     69     55
D50V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2               69
  CLUS_3              8               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 CLUS_4 CLUS_5
  PIK3CA MUTATED        3      1      1      4      4
  PIK3CA WILD-TYPE     36     31     42     26     28
D50V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               36
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              4               26
  CLUS_5              4               28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       10     15      3
  PIK3CA WILD-TYPE    140    170    140
D50V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             10              140
  CLUS_2             15              170
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3CA MUTATED        6      5     12      1      0      2      2
  PIK3CA WILD-TYPE     66    104     78     43     49     44     66
D50V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6               66
  CLUS_2              5              104
  CLUS_3             12               78
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              2               66
[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        9     13      6
  PIK3CA WILD-TYPE    166    198     84
D50V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9              166
  CLUS_2             13              198
  CLUS_3              6               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
  PIK3CA MUTATED        2     10     10      6
  PIK3CA WILD-TYPE     68    176    121     83
D50V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               68
  CLUS_2             10              176
  CLUS_3             10              121
  CLUS_4              6               83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10      6      7
  PIK3CA WILD-TYPE    131    176     82
D50V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             10              131
  CLUS_2              6              176
  CLUS_3              7               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
  PIK3CA MUTATED        2     14      7
  PIK3CA WILD-TYPE     92    219     78
D50V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               92
  CLUS_2             14              219
  CLUS_3              7               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"

Clustering(51) Variable = MED12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MED12 MUTATED        0      0      0      0
  MED12 WILD-TYPE      5      7      5      3
D51V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED12 MUTATED        0      0      0
  MED12 WILD-TYPE      7      9      4
D51V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MED12 MUTATED        5     13      6     13
  MED12 WILD-TYPE     60    197     66    118
D51V3, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             5              60
  CLUS_2            13             197
  CLUS_3             6              66
  CLUS_4            13             118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED12 MUTATED        6     16     12
  MED12 WILD-TYPE    125    122    149
D51V4, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             6             125
  CLUS_2            16             122
  CLUS_3            12             149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED12 MUTATED        4      3      5
  MED12 WILD-TYPE     38     68     58
D51V5, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             3              68
  CLUS_3             5              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MED12 MUTATED        2      2      2      5      1
  MED12 WILD-TYPE     37     30     41     25     31
D51V6, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             2              30
  CLUS_3             2              41
  CLUS_4             5              25
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED12 MUTATED        5     18     14
  MED12 WILD-TYPE    145    167    129
D51V7, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             5             145
  CLUS_2            18             167
  CLUS_3            14             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MED12 MUTATED        3      7     11      4      3      6      3
  MED12 WILD-TYPE     69    102     79     40     46     40     65
D51V8, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             7             102
  CLUS_3            11              79
  CLUS_4             4              40
  CLUS_5             3              46
  CLUS_6             6              40
  CLUS_7             3              65
[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
  MED12 MUTATED        9     24      4
  MED12 WILD-TYPE    166    187     86
D51V9, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             9             166
  CLUS_2            24             187
  CLUS_3             4              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
  MED12 MUTATED        5     19      5      8
  MED12 WILD-TYPE     65    167    126     81
D51V10, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             5              65
  CLUS_2            19             167
  CLUS_3             5             126
  CLUS_4             8              81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MED12 MUTATED        8     20      4
  MED12 WILD-TYPE    133    162     85
D51V11, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             8             133
  CLUS_2            20             162
  CLUS_3             4              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
  MED12 MUTATED        3     24      5
  MED12 WILD-TYPE     91    209     80
D51V12, multiclass
        clus
vv       MED12 MUTATED MED12 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            24             209
  CLUS_3             5              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"

Clustering(52) Variable = TRERF1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRERF1 MUTATED        0      1      0      1
  TRERF1 WILD-TYPE      5      6      5      2
D52V1, multiclass
[1] "Remove cluster labels:" "TRERF1 MUTATED"        
clus
  TRERF1 MUTATED TRERF1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-35-4122       TCGA-35-4123 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-67-3771 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRERF1 MUTATED        0      1      1
  TRERF1 WILD-TYPE      7      8      3
D52V2, multiclass
[1] "Remove cluster labels:" "TRERF1 MUTATED"        
clus
  TRERF1 MUTATED TRERF1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-35-4122       TCGA-35-4123 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-67-3771 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"TRERF1 WILD-TYPE" "TRERF1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRERF1 MUTATED        2      4      4      8
  TRERF1 WILD-TYPE     63    206     68    123
D52V3, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              4              206
  CLUS_3              4               68
  CLUS_4              8              123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRERF1 MUTATED        1      8      7
  TRERF1 WILD-TYPE    130    130    154
D52V4, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              8              130
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRERF1 MUTATED        0      3      3
  TRERF1 WILD-TYPE     42     68     60
D52V5, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              3               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
  TRERF1 MUTATED        1      0      2      2      1
  TRERF1 WILD-TYPE     38     32     41     28     31
D52V6, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              2               28
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRERF1 MUTATED        1     12      5
  TRERF1 WILD-TYPE    149    173    138
D52V7, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1              149
  CLUS_2             12              173
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TRERF1 MUTATED        1      5      5      1      0      4      2
  TRERF1 WILD-TYPE     71    104     85     43     49     42     66
D52V8, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              5              104
  CLUS_3              5               85
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              4               42
  CLUS_7              2               66
[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
  TRERF1 MUTATED        3     13      2
  TRERF1 WILD-TYPE    172    198     88
D52V9, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              3              172
  CLUS_2             13              198
  CLUS_3              2               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
  TRERF1 MUTATED        1     11      3      3
  TRERF1 WILD-TYPE     69    175    128     86
D52V10, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2             11              175
  CLUS_3              3              128
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRERF1 MUTATED        4      9      2
  TRERF1 WILD-TYPE    137    173     87
D52V11, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              9              173
  CLUS_3              2               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
  TRERF1 MUTATED        1     12      2
  TRERF1 WILD-TYPE     93    221     83
D52V12, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2             12              221
  CLUS_3              2               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"

Clustering(53) Variable = DSC2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSC2 MUTATED        0      0      1      0
  DSC2 WILD-TYPE      5      7      4      3
D53V1, multiclass
[1] "Remove cluster labels:" "DSC2 MUTATED"          
clus
  DSC2 MUTATED DSC2 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        1      0      0
  DSC2 WILD-TYPE      6      9      4
D53V2, multiclass
[1] "Remove cluster labels:" "DSC2 MUTATED"          
clus
  DSC2 MUTATED DSC2 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"DSC2 WILD-TYPE" "DSC2 WILD-TYPE" "DSC2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSC2 MUTATED        1      8      4      7
  DSC2 WILD-TYPE     64    202     68    124
D53V3, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            8            202
  CLUS_3            4             68
  CLUS_4            7            124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        2      5     11
  DSC2 WILD-TYPE    129    133    150
D53V4, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            5            133
  CLUS_3           11            150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        5      0      4
  DSC2 WILD-TYPE     37     71     59
D53V5, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            5             37
  CLUS_2            0             71
  CLUS_3            4             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 CLUS_4 CLUS_5
  DSC2 MUTATED        0      1      0      3      5
  DSC2 WILD-TYPE     39     31     43     27     27
D53V6, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            0             43
  CLUS_4            3             27
  CLUS_5            5             27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        5     10      5
  DSC2 WILD-TYPE    145    175    138
D53V7, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            5            145
  CLUS_2           10            175
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DSC2 MUTATED        4      6      4      2      2      1      1
  DSC2 WILD-TYPE     68    103     86     42     47     45     67
D53V8, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            4             68
  CLUS_2            6            103
  CLUS_3            4             86
  CLUS_4            2             42
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            1             67
[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
  DSC2 MUTATED        6      7      7
  DSC2 WILD-TYPE    169    204     83
D53V9, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            6            169
  CLUS_2            7            204
  CLUS_3            7             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
  DSC2 MUTATED        2      7      4      7
  DSC2 WILD-TYPE     68    179    127     82
D53V10, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            179
  CLUS_3            4            127
  CLUS_4            7             82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        8      3      6
  DSC2 WILD-TYPE    133    179     83
D53V11, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            8            133
  CLUS_2            3            179
  CLUS_3            6             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
  DSC2 MUTATED        1     11      5
  DSC2 WILD-TYPE     93    222     80
D53V12, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            1             93
  CLUS_2           11            222
  CLUS_3            5             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"

Clustering(54) Variable = BTK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTK MUTATED        0      1      0      0
  BTK WILD-TYPE      5      6      5      3
D54V1, multiclass
[1] "Remove cluster labels:" "BTK MUTATED"           
clus
  BTK MUTATED BTK WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3918 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BTK MUTATED        0      1      0
  BTK WILD-TYPE      7      8      4
D54V2, multiclass
[1] "Remove cluster labels:" "BTK MUTATED"           
clus
  BTK MUTATED BTK WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3918 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" "BTK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTK MUTATED        3      5      4      4
  BTK WILD-TYPE     62    205     68    127
D54V3, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           3            62
  CLUS_2           5           205
  CLUS_3           4            68
  CLUS_4           4           127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BTK MUTATED        5      4      3
  BTK WILD-TYPE    126    134    158
D54V4, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           5           126
  CLUS_2           4           134
  CLUS_3           3           158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BTK MUTATED        0      1      2
  BTK WILD-TYPE     42     70     61
D54V5, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1            70
  CLUS_3           2            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
  BTK MUTATED        1      1      0      0      1
  BTK WILD-TYPE     38     31     43     30     31
D54V6, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           1            38
  CLUS_2           1            31
  CLUS_3           0            43
  CLUS_4           0            30
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BTK MUTATED        4      6      6
  BTK WILD-TYPE    146    179    137
D54V7, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           4           146
  CLUS_2           6           179
  CLUS_3           6           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BTK MUTATED        1      3      3      1      4      0      4
  BTK WILD-TYPE     71    106     87     43     45     46     64
D54V8, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           1            71
  CLUS_2           3           106
  CLUS_3           3            87
  CLUS_4           1            43
  CLUS_5           4            45
  CLUS_6           0            46
  CLUS_7           4            64
[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
  BTK MUTATED        6     10      0
  BTK WILD-TYPE    169    201     90
D54V9, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           6           169
  CLUS_2          10           201
  CLUS_3           0            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
  BTK MUTATED        1      5      5      5
  BTK WILD-TYPE     69    181    126     84
D54V10, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           1            69
  CLUS_2           5           181
  CLUS_3           5           126
  CLUS_4           5            84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  BTK MUTATED        4      7      1
  BTK WILD-TYPE    137    175     88
D54V11, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           4           137
  CLUS_2           7           175
  CLUS_3           1            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
  BTK MUTATED        2      7      3
  BTK WILD-TYPE     92    226     82
D54V12, multiclass
        clus
vv       BTK MUTATED BTK WILD-TYPE
  CLUS_1           2            92
  CLUS_2           7           226
  CLUS_3           3            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"

Clustering(55) Variable = KIF18B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF18B MUTATED        0      2      0      1
  KIF18B WILD-TYPE      5      5      5      2
D55V1, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0                5
  CLUS_2              2                5
  CLUS_3              0                5
  CLUS_4              1                2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        0      2      1
  KIF18B WILD-TYPE      7      7      3
D55V2, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0                7
  CLUS_2              2                7
  CLUS_3              1                3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIF18B MUTATED        2      0      1      1
  KIF18B WILD-TYPE     63    210     71    130
D55V3, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              2               63
  CLUS_2              0              210
  CLUS_3              1               71
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        0      1      0
  KIF18B WILD-TYPE    131    137    161
D55V4, multiclass
[1] "Remove cluster labels:" "KIF18B MUTATED"        
clus
  KIF18B MUTATED KIF18B WILD-TYPE 
               1              429 
      TCGA-05-4384       TCGA-05-4390       TCGA-05-4396       TCGA-05-4405 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4410       TCGA-05-4415       TCGA-05-4417       TCGA-05-4425 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4427       TCGA-05-4433       TCGA-05-5420       TCGA-05-5423 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-5425       TCGA-05-5428       TCGA-05-5429       TCGA-05-5715 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-35-5375       TCGA-38-4631       TCGA-38-4632       TCGA-38-6178 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-38-7271       TCGA-38-A44F       TCGA-44-2656       TCGA-44-2665 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-3918       TCGA-44-4112       TCGA-44-5643       TCGA-44-5644 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-5645       TCGA-44-6144       TCGA-44-6145       TCGA-44-6146 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6147       TCGA-44-6148       TCGA-44-6774       TCGA-44-6775 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6778       TCGA-44-6779 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7660       TCGA-44-7661       TCGA-44-7662 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7667       TCGA-44-7669       TCGA-44-7670       TCGA-44-7671 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7672       TCGA-44-8117       TCGA-44-8119       TCGA-44-8120 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-A479       TCGA-44-A47A       TCGA-44-A47B       TCGA-44-A47F 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-A47G       TCGA-44-A4SS       TCGA-44-A4SU       TCGA-49-4487 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4488       TCGA-49-4490       TCGA-49-4512       TCGA-49-4514 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6743       TCGA-49-6744       TCGA-49-6745 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6761       TCGA-49-6767       TCGA-50-5044       TCGA-50-5045 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5049       TCGA-50-5051       TCGA-50-5055       TCGA-50-5066 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5930       TCGA-50-5931 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5932       TCGA-50-5933       TCGA-50-5935       TCGA-50-5936 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5939       TCGA-50-5941       TCGA-50-5942       TCGA-50-5944 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5946       TCGA-50-6590       TCGA-50-6591       TCGA-50-6592 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6593       TCGA-50-6594       TCGA-50-6595       TCGA-50-6597 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-50-8457       TCGA-50-8459 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-8460       TCGA-53-7624       TCGA-53-7626       TCGA-53-7813 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-53-A4EZ       TCGA-55-5899       TCGA-55-6543       TCGA-55-6642 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6712       TCGA-55-6968       TCGA-55-6969       TCGA-55-6970 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6972       TCGA-55-6975       TCGA-55-6978 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6979       TCGA-55-6980       TCGA-55-6981       TCGA-55-6982 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6983       TCGA-55-6984       TCGA-55-6985       TCGA-55-6986 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6987       TCGA-55-7227       TCGA-55-7281       TCGA-55-7283 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7284       TCGA-55-7570       TCGA-55-7573       TCGA-55-7574 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7576       TCGA-55-7724       TCGA-55-7725       TCGA-55-7726 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7727       TCGA-55-7728       TCGA-55-7815       TCGA-55-7816 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7903       TCGA-55-7907       TCGA-55-7910       TCGA-55-7911 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7913       TCGA-55-7914       TCGA-55-7994       TCGA-55-7995 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8085       TCGA-55-8087       TCGA-55-8089       TCGA-55-8090 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8091       TCGA-55-8092       TCGA-55-8094       TCGA-55-8096 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8097       TCGA-55-8203       TCGA-55-8204       TCGA-55-8205 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8206       TCGA-55-8207       TCGA-55-8208       TCGA-55-8299 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8301       TCGA-55-8302       TCGA-55-8505       TCGA-55-8506 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8507       TCGA-55-8508       TCGA-55-8510       TCGA-55-8511 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8512       TCGA-55-8513       TCGA-55-8514       TCGA-55-8614 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8615       TCGA-55-8616       TCGA-55-8619       TCGA-55-8620 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8621       TCGA-55-A48X       TCGA-55-A48Y       TCGA-55-A48Z 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A490       TCGA-55-A491       TCGA-55-A492       TCGA-55-A493 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A494       TCGA-55-A4DF       TCGA-55-A4DG       TCGA-62-8394 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-8395       TCGA-62-8397       TCGA-62-8398       TCGA-62-8399 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-8402       TCGA-62-A46O       TCGA-62-A46P       TCGA-62-A46R 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A46S       TCGA-62-A46U       TCGA-62-A46V       TCGA-62-A46Y 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A470       TCGA-62-A471       TCGA-62-A472       TCGA-64-1679 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-1681       TCGA-64-5774       TCGA-64-5775       TCGA-64-5778 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5779       TCGA-64-5781       TCGA-64-5815       TCGA-67-4679 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-67-6215       TCGA-67-6216       TCGA-67-6217       TCGA-69-7760 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7761       TCGA-69-7763       TCGA-69-7764       TCGA-69-7765 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7973       TCGA-69-7974       TCGA-69-7978       TCGA-69-7979 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7980       TCGA-69-8253       TCGA-69-8254       TCGA-69-8255 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-A59K       TCGA-71-6725       TCGA-71-8520       TCGA-73-4658 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-73-4676       TCGA-73-7498       TCGA-73-7499       TCGA-75-5122 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-5125       TCGA-75-5126       TCGA-75-5146       TCGA-75-5147 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6203       TCGA-75-6205       TCGA-75-6206       TCGA-75-6207 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6211       TCGA-75-6212       TCGA-75-6214       TCGA-75-7025 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7146       TCGA-78-7147       TCGA-78-7148 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7220 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7535       TCGA-78-7536       TCGA-78-7537       TCGA-78-7539 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7540       TCGA-78-7542       TCGA-78-7633       TCGA-78-8640 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-8648       TCGA-78-8655       TCGA-78-8660       TCGA-78-8662 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-80-5611       TCGA-83-5908 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7701       TCGA-86-7711 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-7713       TCGA-86-7714       TCGA-86-7953       TCGA-86-7954 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-7955       TCGA-86-8054       TCGA-86-8055       TCGA-86-8056 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8073       TCGA-86-8074       TCGA-86-8075       TCGA-86-8076 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8278       TCGA-86-8279       TCGA-86-8280       TCGA-86-8281 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8358       TCGA-86-8359       TCGA-86-8585       TCGA-86-8668 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8669       TCGA-86-8671       TCGA-86-8672       TCGA-86-8673 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8674       TCGA-86-A456       TCGA-86-A4JF       TCGA-86-A4P7 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-A4P8       TCGA-91-6828       TCGA-91-6829       TCGA-91-6830 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6831       TCGA-91-6835       TCGA-91-6836       TCGA-91-6840 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6847       TCGA-91-6848       TCGA-91-6849       TCGA-91-7771 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-8496       TCGA-91-8497       TCGA-91-8499       TCGA-91-A4BC 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-A4BD       TCGA-93-7347       TCGA-93-7348       TCGA-93-8067 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-A4JN       TCGA-93-A4JO       TCGA-93-A4JP       TCGA-93-A4JQ 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7039       TCGA-95-7043       TCGA-95-7562       TCGA-95-7567 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7944       TCGA-95-7947       TCGA-95-7948       TCGA-95-8039 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-8494       TCGA-95-A4VK       TCGA-95-A4VN       TCGA-95-A4VP 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7546       TCGA-97-7547       TCGA-97-7552       TCGA-97-7553 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7554       TCGA-97-7937       TCGA-97-7938       TCGA-97-7941 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8171       TCGA-97-8172       TCGA-97-8174       TCGA-97-8175 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8176       TCGA-97-8177       TCGA-97-8179       TCGA-97-8547 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8552       TCGA-97-A4LX       TCGA-97-A4M0       TCGA-97-A4M1 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-A4M2       TCGA-97-A4M3       TCGA-97-A4M5       TCGA-97-A4M6 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-A4M7       TCGA-99-7458       TCGA-99-8025       TCGA-99-8028 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-99-8032       TCGA-99-8033       TCGA-J2-8192       TCGA-J2-8194 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-J2-A4AD       TCGA-J2-A4AE       TCGA-J2-A4AG       TCGA-L4-A4E5 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-L4-A4E6       TCGA-L9-A443       TCGA-L9-A444       TCGA-MN-A4N1 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MN-A4N4       TCGA-MN-A4N5       TCGA-MP-A4SV       TCGA-MP-A4SW 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4SY       TCGA-MP-A4T2       TCGA-MP-A4T4       TCGA-MP-A4T6 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4T7       TCGA-MP-A4T8       TCGA-MP-A4T9       TCGA-MP-A4TA 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4TC       TCGA-MP-A4TD       TCGA-MP-A4TE       TCGA-MP-A4TF 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4TH       TCGA-MP-A4TI       TCGA-MP-A4TK       TCGA-MP-A5C7 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-NJ-A4YF       TCGA-NJ-A4YG       TCGA-NJ-A4YI       TCGA-NJ-A4YP 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-NJ-A4YQ       TCGA-NJ-A55A       TCGA-NJ-A55O       TCGA-NJ-A55R 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-O1-A52J 
"KIF18B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        0      0      2
  KIF18B WILD-TYPE     42     71     61
D55V5, multiclass
[1] "Remove cluster labels:" "KIF18B MUTATED"        
clus
  KIF18B MUTATED KIF18B WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1677 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5781       TCGA-67-6215       TCGA-67-6216       TCGA-67-6217 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7760       TCGA-69-7761       TCGA-69-7763       TCGA-69-7764 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7765       TCGA-71-6725       TCGA-73-4658       TCGA-73-4659 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-73-4675       TCGA-73-4676       TCGA-73-7498       TCGA-73-7499 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-5122       TCGA-75-6203       TCGA-75-6205       TCGA-75-6207 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6211       TCGA-75-6212       TCGA-75-6214       TCGA-75-7027 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-7030       TCGA-75-7031       TCGA-78-7143       TCGA-78-7145 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7147       TCGA-78-7148       TCGA-78-7149       TCGA-78-7150 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7152       TCGA-78-7153       TCGA-78-7154       TCGA-78-7155 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIF18B MUTATED        0      1      1      0      0
  KIF18B WILD-TYPE     39     31     42     30     32
D55V6, multiclass
[1] "Remove cluster labels:" "KIF18B MUTATED"        
clus
  KIF18B MUTATED KIF18B WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1677 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5781       TCGA-67-6215       TCGA-67-6216       TCGA-67-6217 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7760       TCGA-69-7761       TCGA-69-7763       TCGA-69-7764 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7765       TCGA-71-6725       TCGA-73-4658       TCGA-73-4659 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-73-4675       TCGA-73-4676       TCGA-73-7498       TCGA-73-7499 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-5122       TCGA-75-6203       TCGA-75-6205       TCGA-75-6207 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6211       TCGA-75-6212       TCGA-75-6214       TCGA-75-7027 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-7030       TCGA-75-7031       TCGA-78-7143       TCGA-78-7145 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7147       TCGA-78-7148       TCGA-78-7149       TCGA-78-7150 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7152       TCGA-78-7153       TCGA-78-7154       TCGA-78-7155 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        0      2      2
  KIF18B WILD-TYPE    150    183    141
D55V7, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0              150
  CLUS_2              2              183
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KIF18B MUTATED        0      2      2      0      0      0      0
  KIF18B WILD-TYPE     72    107     88     44     49     46     68
D55V8, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              0               68
[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
  KIF18B MUTATED        1      2      1
  KIF18B WILD-TYPE    174    209     89
D55V9, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              1              174
  CLUS_2              2              209
  CLUS_3              1               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
  KIF18B MUTATED        0      1      1      2
  KIF18B WILD-TYPE     70    185    130     87
D55V10, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              185
  CLUS_3              1              130
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        1      0      0
  KIF18B WILD-TYPE    140    182     89
D55V11, multiclass
[1] "Remove cluster labels:" "KIF18B MUTATED"        
clus
  KIF18B MUTATED KIF18B WILD-TYPE 
               1              411 
      TCGA-05-4384       TCGA-05-4390       TCGA-05-4396       TCGA-05-4405 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4410       TCGA-05-4415       TCGA-05-4417       TCGA-05-4425 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4427       TCGA-05-4433       TCGA-05-5420       TCGA-05-5423 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-5425       TCGA-05-5428       TCGA-05-5429       TCGA-05-5715 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-35-5375       TCGA-38-4631       TCGA-38-4632       TCGA-38-6178 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-38-7271       TCGA-38-A44F       TCGA-44-5643       TCGA-44-5644 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-5645       TCGA-44-6144       TCGA-44-6145       TCGA-44-6146 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6147       TCGA-44-6148       TCGA-44-6774       TCGA-44-6775 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6778       TCGA-44-6779 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7660       TCGA-44-7661       TCGA-44-7662 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7667       TCGA-44-7669       TCGA-44-7670       TCGA-44-7671 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7672       TCGA-44-8117       TCGA-44-8119       TCGA-44-8120 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-A479       TCGA-44-A47B       TCGA-44-A47F       TCGA-44-A47G 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-A4SS       TCGA-44-A4SU       TCGA-49-4487       TCGA-49-4488 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4490       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6743       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5045       TCGA-50-5049 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5051       TCGA-50-5055       TCGA-50-5066       TCGA-50-5068 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5930       TCGA-50-5931       TCGA-50-5932 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5935       TCGA-50-5936       TCGA-50-5939 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5941       TCGA-50-5942       TCGA-50-5944       TCGA-50-5946 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6590       TCGA-50-6591       TCGA-50-6592       TCGA-50-6593 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6594       TCGA-50-6595       TCGA-50-6597       TCGA-50-6673 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-7109       TCGA-50-8457       TCGA-50-8459       TCGA-50-8460 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-53-7624       TCGA-53-7626       TCGA-53-7813       TCGA-53-A4EZ 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-5899       TCGA-55-6543       TCGA-55-6642       TCGA-55-6712 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6968       TCGA-55-6969       TCGA-55-6970       TCGA-55-6971 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6972       TCGA-55-6978       TCGA-55-6979       TCGA-55-6980 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-6983       TCGA-55-6984 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6985       TCGA-55-6986       TCGA-55-6987       TCGA-55-7227 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7281       TCGA-55-7283       TCGA-55-7284       TCGA-55-7570 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7573       TCGA-55-7574       TCGA-55-7576       TCGA-55-7724 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7726       TCGA-55-7727       TCGA-55-7728       TCGA-55-7815 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7816       TCGA-55-7903       TCGA-55-7907       TCGA-55-7910 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7911       TCGA-55-7913       TCGA-55-7914       TCGA-55-7994 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8085       TCGA-55-8087       TCGA-55-8089       TCGA-55-8090 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8091       TCGA-55-8092       TCGA-55-8094       TCGA-55-8096 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8203       TCGA-55-8204       TCGA-55-8205       TCGA-55-8206 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8208       TCGA-55-8299       TCGA-55-8301       TCGA-55-8302 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8505       TCGA-55-8506       TCGA-55-8507       TCGA-55-8508 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8510       TCGA-55-8511       TCGA-55-8512       TCGA-55-8513 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8514       TCGA-55-8614       TCGA-55-8615       TCGA-55-8616 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8619       TCGA-55-8620       TCGA-55-8621       TCGA-55-A48X 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A48Y       TCGA-55-A48Z       TCGA-55-A490       TCGA-55-A491 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A492       TCGA-55-A493       TCGA-55-A494       TCGA-55-A4DF 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A4DG       TCGA-62-8394       TCGA-62-8395       TCGA-62-8397 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-8398       TCGA-62-8399       TCGA-62-8402       TCGA-62-A46O 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A46P       TCGA-62-A46R       TCGA-62-A46S       TCGA-62-A46U 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A46V       TCGA-62-A46Y       TCGA-62-A470       TCGA-62-A471 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A472       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5775       TCGA-64-5778       TCGA-64-5779       TCGA-64-5781 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5815       TCGA-67-6215       TCGA-67-6216       TCGA-67-6217 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7760       TCGA-69-7765       TCGA-69-7973       TCGA-69-7974 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7978       TCGA-69-7979       TCGA-69-7980       TCGA-69-8253 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-8254       TCGA-69-8255       TCGA-69-A59K       TCGA-71-6725 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-71-8520       TCGA-73-4658       TCGA-73-4676       TCGA-73-7498 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-5125       TCGA-75-5126 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-5146       TCGA-75-5147       TCGA-75-6203       TCGA-75-6205 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6206       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7025       TCGA-75-7027       TCGA-75-7030 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-7031       TCGA-78-7143       TCGA-78-7145       TCGA-78-7146 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7147       TCGA-78-7148       TCGA-78-7149       TCGA-78-7150 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7152       TCGA-78-7154       TCGA-78-7155       TCGA-78-7156 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7163 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7220       TCGA-78-7535 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-78-8640       TCGA-78-8648 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-8655       TCGA-78-8660       TCGA-78-8662       TCGA-80-5607 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-80-5608       TCGA-80-5611       TCGA-83-5908       TCGA-86-6562 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7701       TCGA-86-7711       TCGA-86-7713 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-7714       TCGA-86-7953       TCGA-86-7954       TCGA-86-7955 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8054       TCGA-86-8055       TCGA-86-8056       TCGA-86-8073 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8074       TCGA-86-8075       TCGA-86-8076       TCGA-86-8278 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8279       TCGA-86-8280       TCGA-86-8281       TCGA-86-8358 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8359       TCGA-86-8585       TCGA-86-8668       TCGA-86-8669 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8671       TCGA-86-8672       TCGA-86-8673       TCGA-86-8674 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-A456       TCGA-86-A4JF       TCGA-86-A4P7       TCGA-86-A4P8 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6828       TCGA-91-6829       TCGA-91-6830       TCGA-91-6831 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6836       TCGA-91-6840       TCGA-91-6847 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6848       TCGA-91-6849       TCGA-91-7771       TCGA-91-8496 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-8497       TCGA-91-8499       TCGA-91-A4BC       TCGA-91-A4BD 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-7347       TCGA-93-7348       TCGA-93-A4JN       TCGA-93-A4JO 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-A4JP       TCGA-93-A4JQ       TCGA-95-7039       TCGA-95-7043 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7562       TCGA-95-7567       TCGA-95-7944       TCGA-95-7947 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7948       TCGA-95-8039       TCGA-95-8494       TCGA-95-A4VK 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-A4VN       TCGA-95-A4VP       TCGA-97-7546       TCGA-97-7547 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-97-8171       TCGA-97-8172 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8174       TCGA-97-8175       TCGA-97-8176       TCGA-97-8177 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8179       TCGA-97-8547       TCGA-97-8552       TCGA-97-A4LX 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-A4M0       TCGA-97-A4M1       TCGA-97-A4M2       TCGA-97-A4M3 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-A4M5       TCGA-97-A4M6       TCGA-97-A4M7       TCGA-99-7458 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-99-8025       TCGA-99-8028       TCGA-99-8032       TCGA-99-8033 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-J2-8192       TCGA-J2-8194       TCGA-J2-A4AD       TCGA-J2-A4AE 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-J2-A4AG       TCGA-L4-A4E5       TCGA-L4-A4E6       TCGA-L9-A443 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-L9-A444       TCGA-MN-A4N1       TCGA-MN-A4N4       TCGA-MN-A4N5 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4SV       TCGA-MP-A4SW       TCGA-MP-A4SY       TCGA-MP-A4T2 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4T4       TCGA-MP-A4T6       TCGA-MP-A4T7       TCGA-MP-A4T8 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4T9       TCGA-MP-A4TA       TCGA-MP-A4TC       TCGA-MP-A4TD 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4TE       TCGA-MP-A4TF       TCGA-MP-A4TH       TCGA-MP-A4TI 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4TK       TCGA-MP-A5C7       TCGA-NJ-A4YF       TCGA-NJ-A4YG 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-NJ-A4YI       TCGA-NJ-A4YP       TCGA-NJ-A4YQ       TCGA-NJ-A55A 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-NJ-A55O       TCGA-NJ-A55R       TCGA-O1-A52J 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        0      1      0
  KIF18B WILD-TYPE     94    232     85
D55V12, multiclass
[1] "Remove cluster labels:" "KIF18B MUTATED"        
clus
  KIF18B MUTATED KIF18B WILD-TYPE 
               1              411 
      TCGA-05-4384       TCGA-05-4390       TCGA-05-4396       TCGA-05-4405 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4410       TCGA-05-4415       TCGA-05-4417       TCGA-05-4425 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-4427       TCGA-05-4433       TCGA-05-5420       TCGA-05-5423 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-05-5425       TCGA-05-5428       TCGA-05-5429       TCGA-05-5715 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-35-5375       TCGA-38-4631       TCGA-38-4632       TCGA-38-6178 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-38-7271       TCGA-38-A44F       TCGA-44-5643       TCGA-44-5644 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-5645       TCGA-44-6144       TCGA-44-6145       TCGA-44-6146 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6147       TCGA-44-6148       TCGA-44-6774       TCGA-44-6775 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6778       TCGA-44-6779 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7660       TCGA-44-7661       TCGA-44-7662 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7667       TCGA-44-7669       TCGA-44-7670       TCGA-44-7671 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-7672       TCGA-44-8117       TCGA-44-8119       TCGA-44-8120 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-A479       TCGA-44-A47B       TCGA-44-A47F       TCGA-44-A47G 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-44-A4SS       TCGA-44-A4SU       TCGA-49-4487       TCGA-49-4488 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-4490       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6743       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5045       TCGA-50-5049 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5051       TCGA-50-5055       TCGA-50-5066       TCGA-50-5068 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5930       TCGA-50-5931       TCGA-50-5932 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5935       TCGA-50-5936       TCGA-50-5939 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-5941       TCGA-50-5942       TCGA-50-5944       TCGA-50-5946 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6590       TCGA-50-6591       TCGA-50-6592       TCGA-50-6593 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-6594       TCGA-50-6595       TCGA-50-6597       TCGA-50-6673 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-50-7109       TCGA-50-8457       TCGA-50-8459       TCGA-50-8460 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-53-7624       TCGA-53-7626       TCGA-53-7813       TCGA-53-A4EZ 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-5899       TCGA-55-6543       TCGA-55-6642       TCGA-55-6712 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6968       TCGA-55-6969       TCGA-55-6970       TCGA-55-6971 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6972       TCGA-55-6978       TCGA-55-6979       TCGA-55-6980 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-6983       TCGA-55-6984 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-6985       TCGA-55-6986       TCGA-55-6987       TCGA-55-7227 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7281       TCGA-55-7283       TCGA-55-7284       TCGA-55-7570 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7573       TCGA-55-7574       TCGA-55-7576       TCGA-55-7724 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7726       TCGA-55-7727       TCGA-55-7728       TCGA-55-7815 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7816       TCGA-55-7903       TCGA-55-7907       TCGA-55-7910 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-7911       TCGA-55-7913       TCGA-55-7914       TCGA-55-7994 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8085       TCGA-55-8087       TCGA-55-8089       TCGA-55-8090 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8091       TCGA-55-8092       TCGA-55-8094       TCGA-55-8096 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8203       TCGA-55-8204       TCGA-55-8205       TCGA-55-8206 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8208       TCGA-55-8299       TCGA-55-8301       TCGA-55-8302 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8505       TCGA-55-8506       TCGA-55-8507       TCGA-55-8508 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8510       TCGA-55-8511       TCGA-55-8512       TCGA-55-8513 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8514       TCGA-55-8614       TCGA-55-8615       TCGA-55-8616 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-8619       TCGA-55-8620       TCGA-55-8621       TCGA-55-A48X 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A48Y       TCGA-55-A48Z       TCGA-55-A490       TCGA-55-A491 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A492       TCGA-55-A493       TCGA-55-A494       TCGA-55-A4DF 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-55-A4DG       TCGA-62-8394       TCGA-62-8395       TCGA-62-8397 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-8398       TCGA-62-8399       TCGA-62-8402       TCGA-62-A46O 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A46P       TCGA-62-A46R       TCGA-62-A46S       TCGA-62-A46U 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A46V       TCGA-62-A46Y       TCGA-62-A470       TCGA-62-A471 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-62-A472       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5775       TCGA-64-5778       TCGA-64-5779       TCGA-64-5781 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-64-5815       TCGA-67-6215       TCGA-67-6216       TCGA-67-6217 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7760       TCGA-69-7765       TCGA-69-7973       TCGA-69-7974 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-7978       TCGA-69-7979       TCGA-69-7980       TCGA-69-8253 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-69-8254       TCGA-69-8255       TCGA-69-A59K       TCGA-71-6725 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-71-8520       TCGA-73-4658       TCGA-73-4676       TCGA-73-7498 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-5125       TCGA-75-5126 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-5146       TCGA-75-5147       TCGA-75-6203       TCGA-75-6205 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6206       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7025       TCGA-75-7027       TCGA-75-7030 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-75-7031       TCGA-78-7143       TCGA-78-7145       TCGA-78-7146 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7147       TCGA-78-7148       TCGA-78-7149       TCGA-78-7150 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7152       TCGA-78-7154       TCGA-78-7155       TCGA-78-7156 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7163 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7220       TCGA-78-7535 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-78-8640       TCGA-78-8648 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-78-8655       TCGA-78-8660       TCGA-78-8662       TCGA-80-5607 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-80-5608       TCGA-80-5611       TCGA-83-5908       TCGA-86-6562 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7701       TCGA-86-7711       TCGA-86-7713 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-7714       TCGA-86-7953       TCGA-86-7954       TCGA-86-7955 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8054       TCGA-86-8055       TCGA-86-8056       TCGA-86-8073 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8074       TCGA-86-8075       TCGA-86-8076       TCGA-86-8278 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8279       TCGA-86-8280       TCGA-86-8281       TCGA-86-8358 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8359       TCGA-86-8585       TCGA-86-8668       TCGA-86-8669 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-8671       TCGA-86-8672       TCGA-86-8673       TCGA-86-8674 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-86-A456       TCGA-86-A4JF       TCGA-86-A4P7       TCGA-86-A4P8 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6828       TCGA-91-6829       TCGA-91-6830       TCGA-91-6831 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6836       TCGA-91-6840       TCGA-91-6847 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-6848       TCGA-91-6849       TCGA-91-7771       TCGA-91-8496 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-91-8497       TCGA-91-8499       TCGA-91-A4BC       TCGA-91-A4BD 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-7347       TCGA-93-7348       TCGA-93-A4JN       TCGA-93-A4JO 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-93-A4JP       TCGA-93-A4JQ       TCGA-95-7039       TCGA-95-7043 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7562       TCGA-95-7567       TCGA-95-7944       TCGA-95-7947 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-7948       TCGA-95-8039       TCGA-95-8494       TCGA-95-A4VK 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-95-A4VN       TCGA-95-A4VP       TCGA-97-7546       TCGA-97-7547 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-97-8171       TCGA-97-8172 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8174       TCGA-97-8175       TCGA-97-8176       TCGA-97-8177 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-8179       TCGA-97-8547       TCGA-97-8552       TCGA-97-A4LX 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-A4M0       TCGA-97-A4M1       TCGA-97-A4M2       TCGA-97-A4M3 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-97-A4M5       TCGA-97-A4M6       TCGA-97-A4M7       TCGA-99-7458 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-99-8025       TCGA-99-8028       TCGA-99-8032       TCGA-99-8033 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-J2-8192       TCGA-J2-8194       TCGA-J2-A4AD       TCGA-J2-A4AE 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-J2-A4AG       TCGA-L4-A4E5       TCGA-L4-A4E6       TCGA-L9-A443 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-L9-A444       TCGA-MN-A4N1       TCGA-MN-A4N4       TCGA-MN-A4N5 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4SV       TCGA-MP-A4SW       TCGA-MP-A4SY       TCGA-MP-A4T2 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4T4       TCGA-MP-A4T6       TCGA-MP-A4T7       TCGA-MP-A4T8 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4T9       TCGA-MP-A4TA       TCGA-MP-A4TC       TCGA-MP-A4TD 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4TE       TCGA-MP-A4TF       TCGA-MP-A4TH       TCGA-MP-A4TI 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-MP-A4TK       TCGA-MP-A5C7       TCGA-NJ-A4YF       TCGA-NJ-A4YG 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-NJ-A4YI       TCGA-NJ-A4YP       TCGA-NJ-A4YQ       TCGA-NJ-A55A 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 
      TCGA-NJ-A55O       TCGA-NJ-A55R       TCGA-O1-A52J 
"KIF18B WILD-TYPE" "KIF18B WILD-TYPE" "KIF18B WILD-TYPE" 

Clustering(56) Variable = WDR66 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR66 MUTATED        0      0      0      1
  WDR66 WILD-TYPE      5      7      5      2
D56V1, multiclass
[1] "Remove cluster labels:" "WDR66 MUTATED"         
clus
  WDR66 MUTATED WDR66 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        0      0      1
  WDR66 WILD-TYPE      7      9      3
D56V2, multiclass
[1] "Remove cluster labels:" "WDR66 MUTATED"         
clus
  WDR66 MUTATED WDR66 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"WDR66 WILD-TYPE" "WDR66 WILD-TYPE" "WDR66 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WDR66 MUTATED        3      2      2      7
  WDR66 WILD-TYPE     62    208     70    124
D56V3, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             7             124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        1      8      3
  WDR66 WILD-TYPE    130    130    158
D56V4, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             8             130
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        1      0      5
  WDR66 WILD-TYPE     41     71     58
D56V5, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0              71
  CLUS_3             5              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WDR66 MUTATED        0      3      1      1      1
  WDR66 WILD-TYPE     39     29     42     29     31
D56V6, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             3              29
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        4      4      6
  WDR66 WILD-TYPE    146    181    137
D56V7, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             4             181
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  WDR66 MUTATED        2      1      4      0      2      2      3
  WDR66 WILD-TYPE     70    108     86     44     47     44     65
D56V8, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             1             108
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             2              44
  CLUS_7             3              65
[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
  WDR66 MUTATED        3     10      1
  WDR66 WILD-TYPE    172    201     89
D56V9, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             3             172
  CLUS_2            10             201
  CLUS_3             1              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
  WDR66 MUTATED        1      8      2      3
  WDR66 WILD-TYPE     69    178    129     86
D56V10, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             8             178
  CLUS_3             2             129
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        4      8      0
  WDR66 WILD-TYPE    137    174     89
D56V11, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             8             174
  CLUS_3             0              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
  WDR66 MUTATED        4      8      0
  WDR66 WILD-TYPE     90    225     85
D56V12, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             4              90
  CLUS_2             8             225
  CLUS_3             0              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"

Clustering(57) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        0      1      0      0
  PTEN WILD-TYPE      5      6      5      3
D57V1, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      1      0
  PTEN WILD-TYPE      7      8      4
D57V2, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      4      0      2
  PTEN WILD-TYPE     64    206     72    129
D57V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             64
  CLUS_2            4            206
  CLUS_3            0             72
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      2      3
  PTEN WILD-TYPE    130    136    158
D57V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            130
  CLUS_2            2            136
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        0      0      3
  PTEN WILD-TYPE     42     71     60
D57V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0             71
  CLUS_3            3             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
  PTEN MUTATED        0      0      1      1      1
  PTEN WILD-TYPE     39     32     42     29     31
D57V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      6      0
  PTEN WILD-TYPE    149    179    143
D57V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            149
  CLUS_2            6            179
  CLUS_3            0            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTEN MUTATED        0      5      2      0      0      0      0
  PTEN WILD-TYPE     72    104     88     44     49     46     68
D57V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             72
  CLUS_2            5            104
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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        2      2      3
  PTEN WILD-TYPE    173    209     87
D57V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2            173
  CLUS_2            2            209
  CLUS_3            3             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
  PTEN MUTATED        1      4      1      1
  PTEN WILD-TYPE     69    182    130     88
D57V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            182
  CLUS_3            1            130
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      3      2
  PTEN WILD-TYPE    140    179     87
D57V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            2             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
  PTEN MUTATED        1      3      2
  PTEN WILD-TYPE     93    230     83
D57V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             93
  CLUS_2            3            230
  CLUS_3            2             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"

Clustering(58) Variable = LTBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LTBP1 MUTATED        2      1      1      1
  LTBP1 WILD-TYPE      3      6      4      2
D58V1, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             2               3
  CLUS_2             1               6
  CLUS_3             1               4
  CLUS_4             1               2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LTBP1 MUTATED        2      1      2
  LTBP1 WILD-TYPE      5      8      2
D58V2, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             2               5
  CLUS_2             1               8
  CLUS_3             2               2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LTBP1 MUTATED       11     14      6     15
  LTBP1 WILD-TYPE     54    196     66    116
D58V3, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1            11              54
  CLUS_2            14             196
  CLUS_3             6              66
  CLUS_4            15             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LTBP1 MUTATED        9     13     18
  LTBP1 WILD-TYPE    122    125    143
D58V4, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             9             122
  CLUS_2            13             125
  CLUS_3            18             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LTBP1 MUTATED        2      7      8
  LTBP1 WILD-TYPE     40     64     55
D58V5, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             7              64
  CLUS_3             8              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 CLUS_4 CLUS_5
  LTBP1 MUTATED        2      1      6      5      3
  LTBP1 WILD-TYPE     37     31     37     25     29
D58V6, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              31
  CLUS_3             6              37
  CLUS_4             5              25
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LTBP1 MUTATED        7     23     16
  LTBP1 WILD-TYPE    143    162    127
D58V7, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             7             143
  CLUS_2            23             162
  CLUS_3            16             127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LTBP1 MUTATED        3     14     12      2      7      4      4
  LTBP1 WILD-TYPE     69     95     78     42     42     42     64
D58V8, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             3              69
  CLUS_2            14              95
  CLUS_3            12              78
  CLUS_4             2              42
  CLUS_5             7              42
  CLUS_6             4              42
  CLUS_7             4              64
[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
  LTBP1 MUTATED        8     31      7
  LTBP1 WILD-TYPE    167    180     83
D58V9, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             8             167
  CLUS_2            31             180
  CLUS_3             7              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
  LTBP1 MUTATED        4     19      6     17
  LTBP1 WILD-TYPE     66    167    125     72
D58V10, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            19             167
  CLUS_3             6             125
  CLUS_4            17              72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LTBP1 MUTATED       10     20      7
  LTBP1 WILD-TYPE    131    162     82
D58V11, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1            10             131
  CLUS_2            20             162
  CLUS_3             7              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
  LTBP1 MUTATED        1     31      5
  LTBP1 WILD-TYPE     93    202     80
D58V12, multiclass
        clus
vv       LTBP1 MUTATED LTBP1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2            31             202
  CLUS_3             5              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"

Clustering(59) Variable = C10ORF71 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C10ORF71 MUTATED        0      0      0      0
  C10ORF71 WILD-TYPE      5      7      5      3
D59V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF71 MUTATED        0      0      0
  C10ORF71 WILD-TYPE      7      9      4
D59V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C10ORF71 MUTATED        1      5      4      7
  C10ORF71 WILD-TYPE     64    205     68    124
D59V3, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                1                 64
  CLUS_2                5                205
  CLUS_3                4                 68
  CLUS_4                7                124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF71 MUTATED        1      6      9
  C10ORF71 WILD-TYPE    130    132    152
D59V4, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                1                130
  CLUS_2                6                132
  CLUS_3                9                152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF71 MUTATED        1      1      0
  C10ORF71 WILD-TYPE     41     70     63
D59V5, multiclass
[1] "Remove cluster labels:" "C10ORF71 MUTATED"      
clus
  C10ORF71 MUTATED C10ORF71 WILD-TYPE 
                 2                174 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-4417         TCGA-05-4418         TCGA-05-4420 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-4422         TCGA-05-4426         TCGA-05-4430 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-5420         TCGA-05-5423         TCGA-05-5429 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-5715         TCGA-38-4626         TCGA-38-4627 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-38-6178         TCGA-44-2656         TCGA-44-2657 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3396 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-3919         TCGA-44-4112         TCGA-44-5645 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-6145         TCGA-44-6146         TCGA-44-6147 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-6774         TCGA-44-6775         TCGA-44-6776 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-6777         TCGA-44-6779         TCGA-44-7659 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-7662         TCGA-44-7670         TCGA-44-7671 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-7672         TCGA-49-4486         TCGA-49-4487 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-4488         TCGA-49-4494         TCGA-49-4501 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-4505         TCGA-49-4506         TCGA-49-4507 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-4510         TCGA-49-4512         TCGA-49-4514 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-6742         TCGA-49-6744         TCGA-49-6745 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-6761         TCGA-49-6767         TCGA-50-5044 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5049         TCGA-50-5051         TCGA-50-5068 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5072         TCGA-50-5931         TCGA-50-5932 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5933         TCGA-50-5936         TCGA-50-5939 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5941         TCGA-50-5942         TCGA-50-5944 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-6593         TCGA-50-6595         TCGA-50-6597 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-6673         TCGA-50-7109         TCGA-53-7626 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-53-7813         TCGA-55-1592         TCGA-55-6543 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-6712         TCGA-55-6970         TCGA-55-6971 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-6978         TCGA-55-6979         TCGA-55-6981 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-6982         TCGA-55-7573         TCGA-55-7574 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-7728         TCGA-55-7815         TCGA-55-7911 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-64-1676         TCGA-64-1677         TCGA-64-1679 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-64-1681         TCGA-64-5774         TCGA-64-5778 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-64-5781         TCGA-67-3771         TCGA-67-6215 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-67-6216         TCGA-67-6217         TCGA-69-7760 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-69-7761         TCGA-69-7763         TCGA-69-7764 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-69-7765         TCGA-71-6725         TCGA-73-4658 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-73-4659         TCGA-73-4675         TCGA-73-4676 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-73-7498         TCGA-73-7499         TCGA-75-5122 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-75-6203         TCGA-75-6205         TCGA-75-6207 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-75-6211         TCGA-75-6212         TCGA-75-6214 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-75-7027         TCGA-75-7030         TCGA-75-7031 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7143         TCGA-78-7145         TCGA-78-7147 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7148         TCGA-78-7149         TCGA-78-7150 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7152         TCGA-78-7153         TCGA-78-7154 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7155         TCGA-78-7156         TCGA-78-7159 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7160         TCGA-78-7161         TCGA-78-7162 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7163         TCGA-78-7166         TCGA-78-7167 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7535         TCGA-78-7536         TCGA-78-7537 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7539         TCGA-78-7540         TCGA-78-7542 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7633         TCGA-80-5607         TCGA-80-5608 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-86-6562         TCGA-86-6851         TCGA-86-7713 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-91-6828         TCGA-91-6829         TCGA-91-6835 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-91-6840         TCGA-91-6847         TCGA-91-6849 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-91-7771         TCGA-93-7348         TCGA-95-7039 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-95-7043         TCGA-95-7567         TCGA-95-7947 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-95-7948         TCGA-97-7546         TCGA-97-7552 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-97-7553         TCGA-97-7554         TCGA-97-7937 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-97-7938         TCGA-97-7941         TCGA-99-7458 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C10ORF71 MUTATED        1      0      0      0      1
  C10ORF71 WILD-TYPE     38     32     43     30     31
D59V6, multiclass
[1] "Remove cluster labels:" "C10ORF71 MUTATED"      
clus
  C10ORF71 MUTATED C10ORF71 WILD-TYPE 
                 2                174 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-4417         TCGA-05-4418         TCGA-05-4420 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-4422         TCGA-05-4426         TCGA-05-4430 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-5420         TCGA-05-5423         TCGA-05-5429 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-05-5715         TCGA-38-4626         TCGA-38-4627 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-38-6178         TCGA-44-2656         TCGA-44-2657 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3396 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-3919         TCGA-44-4112         TCGA-44-5645 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-6145         TCGA-44-6146         TCGA-44-6147 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-6774         TCGA-44-6775         TCGA-44-6776 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-6777         TCGA-44-6779         TCGA-44-7659 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-7662         TCGA-44-7670         TCGA-44-7671 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-44-7672         TCGA-49-4486         TCGA-49-4487 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-4488         TCGA-49-4494         TCGA-49-4501 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-4505         TCGA-49-4506         TCGA-49-4507 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-4510         TCGA-49-4512         TCGA-49-4514 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-6742         TCGA-49-6744         TCGA-49-6745 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-49-6761         TCGA-49-6767         TCGA-50-5044 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5049         TCGA-50-5051         TCGA-50-5068 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5072         TCGA-50-5931         TCGA-50-5932 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5933         TCGA-50-5936         TCGA-50-5939 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-5941         TCGA-50-5942         TCGA-50-5944 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-6593         TCGA-50-6595         TCGA-50-6597 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-50-6673         TCGA-50-7109         TCGA-53-7626 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-53-7813         TCGA-55-1592         TCGA-55-6543 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-6712         TCGA-55-6970         TCGA-55-6971 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-6978         TCGA-55-6979         TCGA-55-6981 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-6982         TCGA-55-7573         TCGA-55-7574 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-55-7728         TCGA-55-7815         TCGA-55-7911 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-64-1676         TCGA-64-1677         TCGA-64-1679 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-64-1681         TCGA-64-5774         TCGA-64-5778 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-64-5781         TCGA-67-3771         TCGA-67-6215 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-67-6216         TCGA-67-6217         TCGA-69-7760 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-69-7761         TCGA-69-7763         TCGA-69-7764 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-69-7765         TCGA-71-6725         TCGA-73-4658 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-73-4659         TCGA-73-4675         TCGA-73-4676 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-73-7498         TCGA-73-7499         TCGA-75-5122 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-75-6203         TCGA-75-6205         TCGA-75-6207 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-75-6211         TCGA-75-6212         TCGA-75-6214 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-75-7027         TCGA-75-7030         TCGA-75-7031 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7143         TCGA-78-7145         TCGA-78-7147 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7148         TCGA-78-7149         TCGA-78-7150 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7152         TCGA-78-7153         TCGA-78-7154 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7155         TCGA-78-7156         TCGA-78-7159 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7160         TCGA-78-7161         TCGA-78-7162 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7163         TCGA-78-7166         TCGA-78-7167 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7535         TCGA-78-7536         TCGA-78-7537 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7539         TCGA-78-7540         TCGA-78-7542 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-78-7633         TCGA-80-5607         TCGA-80-5608 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-86-6562         TCGA-86-6851         TCGA-86-7713 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-91-6828         TCGA-91-6829         TCGA-91-6835 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-91-6840         TCGA-91-6847         TCGA-91-6849 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-91-7771         TCGA-93-7348         TCGA-95-7039 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-95-7043         TCGA-95-7567         TCGA-95-7947 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-95-7948         TCGA-97-7546         TCGA-97-7552 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-97-7553         TCGA-97-7554         TCGA-97-7937 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
        TCGA-97-7938         TCGA-97-7941         TCGA-99-7458 
"C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" "C10ORF71 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF71 MUTATED        3     10      4
  C10ORF71 WILD-TYPE    147    175    139
D59V7, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                3                147
  CLUS_2               10                175
  CLUS_3                4                139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C10ORF71 MUTATED        2      4      4      1      2      3      1
  C10ORF71 WILD-TYPE     70    105     86     43     47     43     67
D59V8, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                2                 70
  CLUS_2                4                105
  CLUS_3                4                 86
  CLUS_4                1                 43
  CLUS_5                2                 47
  CLUS_6                3                 43
  CLUS_7                1                 67
[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
  C10ORF71 MUTATED        1     14      2
  C10ORF71 WILD-TYPE    174    197     88
D59V9, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                1                174
  CLUS_2               14                197
  CLUS_3                2                 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
  C10ORF71 MUTATED        0     10      3      4
  C10ORF71 WILD-TYPE     70    176    128     85
D59V10, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2               10                176
  CLUS_3                3                128
  CLUS_4                4                 85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C10ORF71 MUTATED        3     10      2
  C10ORF71 WILD-TYPE    138    172     87
D59V11, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                3                138
  CLUS_2               10                172
  CLUS_3                2                 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
  C10ORF71 MUTATED        1     13      1
  C10ORF71 WILD-TYPE     93    220     84
D59V12, multiclass
        clus
vv       C10ORF71 MUTATED C10ORF71 WILD-TYPE
  CLUS_1                1                 93
  CLUS_2               13                220
  CLUS_3                1                 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"

Clustering(60) Variable = KLHL5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLHL5 MUTATED        0      1      1      0
  KLHL5 WILD-TYPE      5      6      4      3
D60V1, multiclass
[1] "Remove cluster labels:" "KLHL5 MUTATED"         
clus
  KLHL5 MUTATED KLHL5 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2661      TCGA-44-2665 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL5 MUTATED        1      1      0
  KLHL5 WILD-TYPE      6      8      4
D60V2, multiclass
[1] "Remove cluster labels:" "KLHL5 MUTATED"         
clus
  KLHL5 MUTATED KLHL5 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2661      TCGA-44-2665 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"KLHL5 WILD-TYPE" "KLHL5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLHL5 MUTATED        0      6      3      5
  KLHL5 WILD-TYPE     65    204     69    126
D60V3, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             6             204
  CLUS_3             3              69
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL5 MUTATED        3      4      5
  KLHL5 WILD-TYPE    128    134    156
D60V4, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             4             134
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL5 MUTATED        3      0      0
  KLHL5 WILD-TYPE     39     71     63
D60V5, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             0              71
  CLUS_3             0              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 CLUS_4 CLUS_5
  KLHL5 MUTATED        0      1      0      1      1
  KLHL5 WILD-TYPE     39     31     43     29     31
D60V6, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL5 MUTATED        6      6      2
  KLHL5 WILD-TYPE    144    179    141
D60V7, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             6             144
  CLUS_2             6             179
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KLHL5 MUTATED        1      4      3      1      0      2      3
  KLHL5 WILD-TYPE     71    105     87     43     49     44     65
D60V8, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             2              44
  CLUS_7             3              65
[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
  KLHL5 MUTATED        5      7      2
  KLHL5 WILD-TYPE    170    204     88
D60V9, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             5             170
  CLUS_2             7             204
  CLUS_3             2              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
  KLHL5 MUTATED        1      5      6      2
  KLHL5 WILD-TYPE     69    181    125     87
D60V10, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             6             125
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL5 MUTATED        4      6      1
  KLHL5 WILD-TYPE    137    176     88
D60V11, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             6             176
  CLUS_3             1              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
  KLHL5 MUTATED        3      7      1
  KLHL5 WILD-TYPE     91    226     84
D60V12, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             7             226
  CLUS_3             1              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"

Clustering(61) Variable = FAM65C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM65C MUTATED        0      0      0      0
  FAM65C WILD-TYPE      5      7      5      3
D61V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        0      0      0
  FAM65C WILD-TYPE      7      9      4
D61V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM65C MUTATED        1      8      3      2
  FAM65C WILD-TYPE     64    202     69    129
D61V3, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              1               64
  CLUS_2              8              202
  CLUS_3              3               69
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        3      4      6
  FAM65C WILD-TYPE    128    134    155
D61V4, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              3              128
  CLUS_2              4              134
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        1      0      3
  FAM65C WILD-TYPE     41     71     60
D61V5, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0               71
  CLUS_3              3               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
  FAM65C MUTATED        0      2      0      2      0
  FAM65C WILD-TYPE     39     30     43     28     32
D61V6, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              0               39
  CLUS_2              2               30
  CLUS_3              0               43
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        5      5      4
  FAM65C WILD-TYPE    145    180    139
D61V7, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              5              145
  CLUS_2              5              180
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FAM65C MUTATED        2      5      3      1      1      2      0
  FAM65C WILD-TYPE     70    104     87     43     48     44     68
D61V8, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              2               70
  CLUS_2              5              104
  CLUS_3              3               87
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              0               68
[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
  FAM65C MUTATED        2     10      2
  FAM65C WILD-TYPE    173    201     88
D61V9, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              2              173
  CLUS_2             10              201
  CLUS_3              2               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
  FAM65C MUTATED        1      7      2      4
  FAM65C WILD-TYPE     69    179    129     85
D61V10, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              1               69
  CLUS_2              7              179
  CLUS_3              2              129
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        4      4      3
  FAM65C WILD-TYPE    137    178     86
D61V11, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              4              137
  CLUS_2              4              178
  CLUS_3              3               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
  FAM65C MUTATED        0      9      2
  FAM65C WILD-TYPE     94    224     83
D61V12, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              0               94
  CLUS_2              9              224
  CLUS_3              2               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"

Clustering(62) Variable = KRTAP5-10 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-10 MUTATED        0      0      0      0
  KRTAP5-10 WILD-TYPE      5      7      5      3
D62V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP5-10 MUTATED        0      0      0
  KRTAP5-10 WILD-TYPE      7      9      4
D62V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-10 MUTATED        1      4      4      3
  KRTAP5-10 WILD-TYPE     64    206     68    128
D62V3, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 1                  64
  CLUS_2                 4                 206
  CLUS_3                 4                  68
  CLUS_4                 3                 128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP5-10 MUTATED        1      6      4
  KRTAP5-10 WILD-TYPE    130    132    157
D62V4, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 1                 130
  CLUS_2                 6                 132
  CLUS_3                 4                 157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP5-10 MUTATED        1      1      0
  KRTAP5-10 WILD-TYPE     41     70     63
D62V5, multiclass
[1] "Remove cluster labels:" "KRTAP5-10 MUTATED"     
clus
  KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE 
                  2                 174 
         TCGA-05-4249          TCGA-05-4384          TCGA-05-4396 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4398          TCGA-05-4402          TCGA-05-4405 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4410          TCGA-05-4417          TCGA-05-4418 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4420          TCGA-05-4422          TCGA-05-4426 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4430          TCGA-05-5420          TCGA-05-5423 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-5429          TCGA-05-5715          TCGA-38-4626 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-38-4627          TCGA-38-6178          TCGA-44-2656 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-2657          TCGA-44-2661          TCGA-44-2665 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-3396          TCGA-44-3919          TCGA-44-4112 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-5645          TCGA-44-6145          TCGA-44-6146 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-6147          TCGA-44-6774          TCGA-44-6775 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-6776          TCGA-44-6777          TCGA-44-6779 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-7659          TCGA-44-7662          TCGA-44-7670 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-7671          TCGA-44-7672          TCGA-49-4486 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-4487          TCGA-49-4488          TCGA-49-4494 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-4501          TCGA-49-4506          TCGA-49-4507 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-4510          TCGA-49-4512          TCGA-49-4514 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-6742          TCGA-49-6744          TCGA-49-6745 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-6761          TCGA-49-6767          TCGA-50-5044 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5049          TCGA-50-5051          TCGA-50-5068 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5072          TCGA-50-5931          TCGA-50-5932 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5933          TCGA-50-5936          TCGA-50-5939 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5941          TCGA-50-5942          TCGA-50-5944 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-6593          TCGA-50-6595          TCGA-50-6597 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-6673          TCGA-50-7109          TCGA-53-7626 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-53-7813          TCGA-55-1592          TCGA-55-6543 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-6712          TCGA-55-6970          TCGA-55-6971 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-6978          TCGA-55-6979          TCGA-55-6981 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-6982          TCGA-55-7573          TCGA-55-7574 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-7728          TCGA-55-7815          TCGA-55-7911 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-64-1676          TCGA-64-1677          TCGA-64-1679 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-64-1681          TCGA-64-5774          TCGA-64-5778 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-64-5781          TCGA-67-3771          TCGA-67-6215 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-67-6216          TCGA-67-6217          TCGA-69-7760 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-69-7761          TCGA-69-7763          TCGA-69-7764 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-69-7765          TCGA-71-6725          TCGA-73-4658 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-73-4659          TCGA-73-4675          TCGA-73-4676 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-73-7498          TCGA-73-7499          TCGA-75-5122 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-75-6203          TCGA-75-6205          TCGA-75-6207 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-75-6211          TCGA-75-6212          TCGA-75-6214 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-75-7027          TCGA-75-7030          TCGA-75-7031 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7143          TCGA-78-7145          TCGA-78-7147 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7148          TCGA-78-7149          TCGA-78-7150 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7152          TCGA-78-7153          TCGA-78-7154 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7155          TCGA-78-7156          TCGA-78-7158 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7159          TCGA-78-7160          TCGA-78-7161 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7162          TCGA-78-7163          TCGA-78-7166 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7167          TCGA-78-7535          TCGA-78-7536 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7537          TCGA-78-7539          TCGA-78-7540 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7542          TCGA-78-7633          TCGA-80-5607 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-80-5608          TCGA-86-6562          TCGA-86-6851 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-86-7713          TCGA-91-6828          TCGA-91-6829 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-91-6835          TCGA-91-6840          TCGA-91-6847 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-91-6849          TCGA-91-7771          TCGA-93-7348 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-95-7039          TCGA-95-7043          TCGA-95-7567 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-95-7947          TCGA-95-7948          TCGA-97-7546 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-97-7552          TCGA-97-7553          TCGA-97-7554 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-97-7937          TCGA-97-7938          TCGA-97-7941 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRTAP5-10 MUTATED        1      0      0      0      1
  KRTAP5-10 WILD-TYPE     38     32     43     30     31
D62V6, multiclass
[1] "Remove cluster labels:" "KRTAP5-10 MUTATED"     
clus
  KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE 
                  2                 174 
         TCGA-05-4249          TCGA-05-4384          TCGA-05-4396 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4398          TCGA-05-4402          TCGA-05-4405 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4410          TCGA-05-4417          TCGA-05-4418 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4420          TCGA-05-4422          TCGA-05-4426 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-4430          TCGA-05-5420          TCGA-05-5423 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-05-5429          TCGA-05-5715          TCGA-38-4626 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-38-4627          TCGA-38-6178          TCGA-44-2656 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-2657          TCGA-44-2661          TCGA-44-2665 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-3396          TCGA-44-3919          TCGA-44-4112 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-5645          TCGA-44-6145          TCGA-44-6146 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-6147          TCGA-44-6774          TCGA-44-6775 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-6776          TCGA-44-6777          TCGA-44-6779 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-7659          TCGA-44-7662          TCGA-44-7670 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-44-7671          TCGA-44-7672          TCGA-49-4486 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-4487          TCGA-49-4488          TCGA-49-4494 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-4501          TCGA-49-4506          TCGA-49-4507 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-4510          TCGA-49-4512          TCGA-49-4514 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-6742          TCGA-49-6744          TCGA-49-6745 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-49-6761          TCGA-49-6767          TCGA-50-5044 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5049          TCGA-50-5051          TCGA-50-5068 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5072          TCGA-50-5931          TCGA-50-5932 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5933          TCGA-50-5936          TCGA-50-5939 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-5941          TCGA-50-5942          TCGA-50-5944 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-6593          TCGA-50-6595          TCGA-50-6597 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-50-6673          TCGA-50-7109          TCGA-53-7626 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-53-7813          TCGA-55-1592          TCGA-55-6543 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-6712          TCGA-55-6970          TCGA-55-6971 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-6978          TCGA-55-6979          TCGA-55-6981 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-6982          TCGA-55-7573          TCGA-55-7574 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-55-7728          TCGA-55-7815          TCGA-55-7911 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-64-1676          TCGA-64-1677          TCGA-64-1679 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-64-1681          TCGA-64-5774          TCGA-64-5778 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-64-5781          TCGA-67-3771          TCGA-67-6215 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-67-6216          TCGA-67-6217          TCGA-69-7760 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-69-7761          TCGA-69-7763          TCGA-69-7764 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-69-7765          TCGA-71-6725          TCGA-73-4658 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-73-4659          TCGA-73-4675          TCGA-73-4676 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-73-7498          TCGA-73-7499          TCGA-75-5122 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-75-6203          TCGA-75-6205          TCGA-75-6207 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-75-6211          TCGA-75-6212          TCGA-75-6214 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-75-7027          TCGA-75-7030          TCGA-75-7031 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7143          TCGA-78-7145          TCGA-78-7147 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7148          TCGA-78-7149          TCGA-78-7150 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7152          TCGA-78-7153          TCGA-78-7154 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7155          TCGA-78-7156          TCGA-78-7158 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7159          TCGA-78-7160          TCGA-78-7161 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7162          TCGA-78-7163          TCGA-78-7166 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7167          TCGA-78-7535          TCGA-78-7536 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7537          TCGA-78-7539          TCGA-78-7540 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-78-7542          TCGA-78-7633          TCGA-80-5607 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-80-5608          TCGA-86-6562          TCGA-86-6851 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-86-7713          TCGA-91-6828          TCGA-91-6829 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-91-6835          TCGA-91-6840          TCGA-91-6847 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-91-6849          TCGA-91-7771          TCGA-93-7348 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-95-7039          TCGA-95-7043          TCGA-95-7567 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-95-7947          TCGA-95-7948          TCGA-97-7546 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-97-7552          TCGA-97-7553          TCGA-97-7554 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
         TCGA-97-7937          TCGA-97-7938          TCGA-97-7941 
"KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" "KRTAP5-10 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP5-10 MUTATED        3      4      5
  KRTAP5-10 WILD-TYPE    147    181    138
D62V7, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 3                 147
  CLUS_2                 4                 181
  CLUS_3                 5                 138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRTAP5-10 MUTATED        1      3      2      1      2      2      1
  KRTAP5-10 WILD-TYPE     71    106     88     43     47     44     67
D62V8, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 1                  71
  CLUS_2                 3                 106
  CLUS_3                 2                  88
  CLUS_4                 1                  43
  CLUS_5                 2                  47
  CLUS_6                 2                  44
  CLUS_7                 1                  67
[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
  KRTAP5-10 MUTATED        4      7      1
  KRTAP5-10 WILD-TYPE    171    204     89
D62V9, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 4                 171
  CLUS_2                 7                 204
  CLUS_3                 1                  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
  KRTAP5-10 MUTATED        2      6      2      2
  KRTAP5-10 WILD-TYPE     68    180    129     87
D62V10, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 2                  68
  CLUS_2                 6                 180
  CLUS_3                 2                 129
  CLUS_4                 2                  87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KRTAP5-10 MUTATED        1      8      2
  KRTAP5-10 WILD-TYPE    140    174     87
D62V11, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 1                 140
  CLUS_2                 8                 174
  CLUS_3                 2                  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
  KRTAP5-10 MUTATED        2      8      1
  KRTAP5-10 WILD-TYPE     92    225     84
D62V12, multiclass
        clus
vv       KRTAP5-10 MUTATED KRTAP5-10 WILD-TYPE
  CLUS_1                 2                  92
  CLUS_2                 8                 225
  CLUS_3                 1                  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"

Clustering(63) Variable = PAK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK1 MUTATED        0      0      0      0
  PAK1 WILD-TYPE      5      7      5      3
D63V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        0      0      0
  PAK1 WILD-TYPE      7      9      4
D63V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK1 MUTATED        0      6      2      1
  PAK1 WILD-TYPE     65    204     70    130
D63V3, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            6            204
  CLUS_3            2             70
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        3      4      2
  PAK1 WILD-TYPE    128    134    159
D63V4, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            4            134
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        4      0      1
  PAK1 WILD-TYPE     38     71     62
D63V5, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            0             71
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK1 MUTATED        0      2      0      1      2
  PAK1 WILD-TYPE     39     30     43     29     30
D63V6, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            2             30
  CLUS_3            0             43
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        2      2      5
  PAK1 WILD-TYPE    148    183    138
D63V7, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            2            183
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PAK1 MUTATED        1      0      2      2      1      2      1
  PAK1 WILD-TYPE     71    109     88     42     48     44     67
D63V8, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            0            109
  CLUS_3            2             88
  CLUS_4            2             42
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            1             67
[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
  PAK1 MUTATED        4      4      1
  PAK1 WILD-TYPE    171    207     89
D63V9, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            4            171
  CLUS_2            4            207
  CLUS_3            1             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
  PAK1 MUTATED        2      3      2      2
  PAK1 WILD-TYPE     68    183    129     87
D63V10, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            183
  CLUS_3            2            129
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        3      4      2
  PAK1 WILD-TYPE    138    178     87
D63V11, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            4            178
  CLUS_3            2             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
  PAK1 MUTATED        2      5      2
  PAK1 WILD-TYPE     92    228     83
D63V12, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            5            228
  CLUS_3            2             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"

Clustering(64) Variable = ABCC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCC4 MUTATED        0      1      0      1
  ABCC4 WILD-TYPE      5      6      5      2
D64V1, multiclass
[1] "Remove cluster labels:" "ABCC4 MUTATED"         
clus
  ABCC4 MUTATED ABCC4 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        0      1      1
  ABCC4 WILD-TYPE      7      8      3
D64V2, multiclass
[1] "Remove cluster labels:" "ABCC4 MUTATED"         
clus
  ABCC4 MUTATED ABCC4 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ABCC4 WILD-TYPE" "ABCC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCC4 MUTATED        4      7      3      5
  ABCC4 WILD-TYPE     61    203     69    126
D64V3, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             7             203
  CLUS_3             3              69
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        2      5      7
  ABCC4 WILD-TYPE    129    133    154
D64V4, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             5             133
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        1      2      2
  ABCC4 WILD-TYPE     41     69     61
D64V5, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             2              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
  ABCC4 MUTATED        1      2      1      0      1
  ABCC4 WILD-TYPE     38     30     42     30     31
D64V6, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              30
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        5      8      6
  ABCC4 WILD-TYPE    145    177    137
D64V7, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             5             145
  CLUS_2             8             177
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ABCC4 MUTATED        2      7      5      2      1      1      1
  ABCC4 WILD-TYPE     70    102     85     42     48     45     67
D64V8, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             7             102
  CLUS_3             5              85
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             1              67
[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
  ABCC4 MUTATED        5     10      3
  ABCC4 WILD-TYPE    170    201     87
D64V9, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             5             170
  CLUS_2            10             201
  CLUS_3             3              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
  ABCC4 MUTATED        3      6      3      6
  ABCC4 WILD-TYPE     67    180    128     83
D64V10, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             6             180
  CLUS_3             3             128
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCC4 MUTATED        3      5      3
  ABCC4 WILD-TYPE    138    177     86
D64V11, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             3              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
  ABCC4 MUTATED        3      6      2
  ABCC4 WILD-TYPE     91    227     83
D64V12, multiclass
        clus
vv       ABCC4 MUTATED ABCC4 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             6             227
  CLUS_3             2              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"

Clustering(65) Variable = HERC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HERC4 MUTATED        0      0      0      1
  HERC4 WILD-TYPE      5      7      5      2
D65V1, multiclass
[1] "Remove cluster labels:" "HERC4 MUTATED"         
clus
  HERC4 MUTATED HERC4 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC4 MUTATED        0      0      1
  HERC4 WILD-TYPE      7      9      3
D65V2, multiclass
[1] "Remove cluster labels:" "HERC4 MUTATED"         
clus
  HERC4 MUTATED HERC4 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"HERC4 WILD-TYPE" "HERC4 WILD-TYPE" "HERC4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HERC4 MUTATED        2      3      2      6
  HERC4 WILD-TYPE     63    207     70    125
D65V3, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3             207
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC4 MUTATED        3      3      5
  HERC4 WILD-TYPE    128    135    156
D65V4, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC4 MUTATED        1      3      2
  HERC4 WILD-TYPE     41     68     61
D65V5, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             2              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
  HERC4 MUTATED        2      0      2      0      2
  HERC4 WILD-TYPE     37     32     41     30     30
D65V6, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC4 MUTATED        1      9      3
  HERC4 WILD-TYPE    149    176    140
D65V7, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             9             176
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HERC4 MUTATED        1      4      5      1      1      0      1
  HERC4 WILD-TYPE     71    105     85     43     48     46     67
D65V8, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             5              85
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  HERC4 MUTATED        5      7      1
  HERC4 WILD-TYPE    170    204     89
D65V9, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             5             170
  CLUS_2             7             204
  CLUS_3             1              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
  HERC4 MUTATED        2      4      3      4
  HERC4 WILD-TYPE     68    182    128     85
D65V10, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             4             182
  CLUS_3             3             128
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC4 MUTATED        2      5      4
  HERC4 WILD-TYPE    139    177     85
D65V11, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             5             177
  CLUS_3             4              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
  HERC4 MUTATED        0      9      2
  HERC4 WILD-TYPE     94    224     83
D65V12, multiclass
        clus
vv       HERC4 MUTATED HERC4 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             9             224
  CLUS_3             2              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"

Clustering(66) Variable = DMRTB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DMRTB1 MUTATED        0      0      0      0
  DMRTB1 WILD-TYPE      5      7      5      3
D66V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        0      0      0
  DMRTB1 WILD-TYPE      7      9      4
D66V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DMRTB1 MUTATED        2      2      1      5
  DMRTB1 WILD-TYPE     63    208     71    126
D66V3, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        1      3      5
  DMRTB1 WILD-TYPE    130    135    156
D66V4, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              3              135
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        1      0      2
  DMRTB1 WILD-TYPE     41     71     61
D66V5, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0               71
  CLUS_3              2               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
  DMRTB1 MUTATED        0      0      0      2      1
  DMRTB1 WILD-TYPE     39     32     43     28     31
D66V6, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              0               32
  CLUS_3              0               43
  CLUS_4              2               28
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        2      7      1
  DMRTB1 WILD-TYPE    148    178    142
D66V7, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              7              178
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DMRTB1 MUTATED        1      4      4      0      1      0      0
  DMRTB1 WILD-TYPE     71    105     86     44     48     46     68
D66V8, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              4              105
  CLUS_3              4               86
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              0               68
[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
  DMRTB1 MUTATED        1      6      3
  DMRTB1 WILD-TYPE    174    205     87
D66V9, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              6              205
  CLUS_3              3               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
  DMRTB1 MUTATED        0      6      1      3
  DMRTB1 WILD-TYPE     70    180    130     86
D66V10, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              180
  CLUS_3              1              130
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DMRTB1 MUTATED        1      5      3
  DMRTB1 WILD-TYPE    140    177     86
D66V11, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              1              140
  CLUS_2              5              177
  CLUS_3              3               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
  DMRTB1 MUTATED        0      8      1
  DMRTB1 WILD-TYPE     94    225     84
D66V12, multiclass
        clus
vv       DMRTB1 MUTATED DMRTB1 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              8              225
  CLUS_3              1               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"

Clustering(67) Variable = C5AR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5AR1 MUTATED        0      0      0      0
  C5AR1 WILD-TYPE      5      7      5      3
D67V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        0      0      0
  C5AR1 WILD-TYPE      7      9      4
D67V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5AR1 MUTATED        0      2      1      3
  C5AR1 WILD-TYPE     65    208     71    128
D67V3, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        0      3      3
  C5AR1 WILD-TYPE    131    135    158
D67V4, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        1      1      1
  C5AR1 WILD-TYPE     41     70     62
D67V5, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5AR1 MUTATED        0      0      0      0      3
  C5AR1 WILD-TYPE     39     32     43     30     29
D67V6, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        0      3      3
  C5AR1 WILD-TYPE    150    182    140
D67V7, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             3             182
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C5AR1 MUTATED        0      3      1      0      1      1      0
  C5AR1 WILD-TYPE     72    106     89     44     48     45     68
D67V8, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  C5AR1 MUTATED        0      4      2
  C5AR1 WILD-TYPE    175    207     88
D67V9, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             4             207
  CLUS_3             2              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
  C5AR1 MUTATED        0      4      0      2
  C5AR1 WILD-TYPE     70    182    131     87
D67V10, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        2      3      1
  C5AR1 WILD-TYPE    139    179     88
D67V11, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             3             179
  CLUS_3             1              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
  C5AR1 MUTATED        0      3      3
  C5AR1 WILD-TYPE     94    230     82
D67V12, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             3             230
  CLUS_3             3              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"

Clustering(68) Variable = SLC26A10 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A10 MUTATED        0      0      0      0
  SLC26A10 WILD-TYPE      5      7      5      3
D68V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC26A10 MUTATED        0      0      0
  SLC26A10 WILD-TYPE      7      9      4
D68V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A10 MUTATED        2      4      3      5
  SLC26A10 WILD-TYPE     63    206     69    126
D68V3, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                4                206
  CLUS_3                3                 69
  CLUS_4                5                126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC26A10 MUTATED        3      6      5
  SLC26A10 WILD-TYPE    128    132    156
D68V4, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                3                128
  CLUS_2                6                132
  CLUS_3                5                156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC26A10 MUTATED        0      0      3
  SLC26A10 WILD-TYPE     42     71     60
D68V5, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                0                 71
  CLUS_3                3                 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
  SLC26A10 MUTATED        0      0      0      2      1
  SLC26A10 WILD-TYPE     39     32     43     28     31
D68V6, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                0                 32
  CLUS_3                0                 43
  CLUS_4                2                 28
  CLUS_5                1                 31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC26A10 MUTATED        4      5      5
  SLC26A10 WILD-TYPE    146    180    138
D68V7, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                4                146
  CLUS_2                5                180
  CLUS_3                5                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC26A10 MUTATED        0      3      3      1      2      2      3
  SLC26A10 WILD-TYPE     72    106     87     43     47     44     65
D68V8, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                0                 72
  CLUS_2                3                106
  CLUS_3                3                 87
  CLUS_4                1                 43
  CLUS_5                2                 47
  CLUS_6                2                 44
  CLUS_7                3                 65
[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
  SLC26A10 MUTATED        2      8      4
  SLC26A10 WILD-TYPE    173    203     86
D68V9, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                2                173
  CLUS_2                8                203
  CLUS_3                4                 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
  SLC26A10 MUTATED        2      5      2      5
  SLC26A10 WILD-TYPE     68    181    129     84
D68V10, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                5                181
  CLUS_3                2                129
  CLUS_4                5                 84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SLC26A10 MUTATED        2      6      6
  SLC26A10 WILD-TYPE    139    176     83
D68V11, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                2                139
  CLUS_2                6                176
  CLUS_3                6                 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
  SLC26A10 MUTATED        1     11      2
  SLC26A10 WILD-TYPE     93    222     83
D68V12, multiclass
        clus
vv       SLC26A10 MUTATED SLC26A10 WILD-TYPE
  CLUS_1                1                 93
  CLUS_2               11                222
  CLUS_3                2                 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"

Clustering(69) Variable = PTGIS MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTGIS MUTATED        0      0      0      0
  PTGIS WILD-TYPE      5      7      5      3
D69V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGIS MUTATED        0      0      0
  PTGIS WILD-TYPE      7      9      4
D69V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTGIS MUTATED        2      5      3      1
  PTGIS WILD-TYPE     63    205     69    130
D69V3, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             2              63
  CLUS_2             5             205
  CLUS_3             3              69
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGIS MUTATED        1      5      3
  PTGIS WILD-TYPE    130    133    158
D69V4, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             1             130
  CLUS_2             5             133
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGIS MUTATED        0      1      1
  PTGIS WILD-TYPE     42     70     62
D69V5, multiclass
[1] "Remove cluster labels:" "PTGIS MUTATED"         
clus
  PTGIS MUTATED PTGIS WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4402 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-05-4405      TCGA-05-4410      TCGA-05-4417      TCGA-05-4418 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7671      TCGA-44-7672      TCGA-49-4486 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-4487      TCGA-49-4488      TCGA-49-4494      TCGA-49-4501 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-4505      TCGA-49-4506      TCGA-49-4507      TCGA-49-4510 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-4512      TCGA-49-4514      TCGA-49-6742      TCGA-49-6744 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTGIS MUTATED        0      0      1      1      0
  PTGIS WILD-TYPE     39     32     42     29     32
D69V6, multiclass
[1] "Remove cluster labels:" "PTGIS MUTATED"         
clus
  PTGIS MUTATED PTGIS WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4402 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-05-4405      TCGA-05-4410      TCGA-05-4417      TCGA-05-4418 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7671      TCGA-44-7672      TCGA-49-4486 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-4487      TCGA-49-4488      TCGA-49-4494      TCGA-49-4501 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-4505      TCGA-49-4506      TCGA-49-4507      TCGA-49-4510 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-4512      TCGA-49-4514      TCGA-49-6742      TCGA-49-6744 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"PTGIS WILD-TYPE" "PTGIS WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGIS MUTATED        0     10      1
  PTGIS WILD-TYPE    150    175    142
D69V7, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             0             150
  CLUS_2            10             175
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTGIS MUTATED        0      4      3      1      0      2      1
  PTGIS WILD-TYPE     72    105     87     43     49     44     67
D69V8, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             2              44
  CLUS_7             1              67
[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
  PTGIS MUTATED        2      8      0
  PTGIS WILD-TYPE    173    203     90
D69V9, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             2             173
  CLUS_2             8             203
  CLUS_3             0              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
  PTGIS MUTATED        2      5      0      3
  PTGIS WILD-TYPE     68    181    131     86
D69V10, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             2              68
  CLUS_2             5             181
  CLUS_3             0             131
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTGIS MUTATED        3      4      1
  PTGIS WILD-TYPE    138    178     88
D69V11, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             3             138
  CLUS_2             4             178
  CLUS_3             1              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
  PTGIS MUTATED        1      6      1
  PTGIS WILD-TYPE     93    227     84
D69V12, multiclass
        clus
vv       PTGIS MUTATED PTGIS WILD-TYPE
  CLUS_1             1              93
  CLUS_2             6             227
  CLUS_3             1              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"

Clustering(70) Variable = DLX5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLX5 MUTATED        0      0      0      0
  DLX5 WILD-TYPE      5      7      5      3
D70V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        0      0      0
  DLX5 WILD-TYPE      7      9      4
D70V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLX5 MUTATED        2      5      1      5
  DLX5 WILD-TYPE     63    205     71    126
D70V3, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            5            205
  CLUS_3            1             71
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        4      4      4
  DLX5 WILD-TYPE    127    134    157
D70V4, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            4            127
  CLUS_2            4            134
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        0      3      1
  DLX5 WILD-TYPE     42     68     62
D70V5, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3             68
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLX5 MUTATED        1      0      3      0      0
  DLX5 WILD-TYPE     38     32     40     30     32
D70V6, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            3             40
  CLUS_4            0             30
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        2      7      4
  DLX5 WILD-TYPE    148    178    139
D70V7, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            7            178
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DLX5 MUTATED        1      3      4      0      2      2      1
  DLX5 WILD-TYPE     71    106     86     44     47     44     67
D70V8, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            4             86
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            2             44
  CLUS_7            1             67
[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
  DLX5 MUTATED        0     10      3
  DLX5 WILD-TYPE    175    201     87
D70V9, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            0            175
  CLUS_2           10            201
  CLUS_3            3             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
  DLX5 MUTATED        0      6      2      5
  DLX5 WILD-TYPE     70    180    129     84
D70V10, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            180
  CLUS_3            2            129
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        2      9      1
  DLX5 WILD-TYPE    139    173     88
D70V11, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            9            173
  CLUS_3            1             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
  DLX5 MUTATED        1     10      1
  DLX5 WILD-TYPE     93    223     84
D70V12, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            1             93
  CLUS_2           10            223
  CLUS_3            1             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"

Clustering(71) Variable = GPATCH4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPATCH4 MUTATED        0      0      0      0
  GPATCH4 WILD-TYPE      5      7      5      3
D71V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH4 MUTATED        0      0      0
  GPATCH4 WILD-TYPE      7      9      4
D71V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPATCH4 MUTATED        0      2      4      2
  GPATCH4 WILD-TYPE     65    208     68    129
D71V3, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               2               208
  CLUS_3               4                68
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH4 MUTATED        0      4      3
  GPATCH4 WILD-TYPE    131    134    158
D71V4, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               4               134
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH4 MUTATED        0      2      0
  GPATCH4 WILD-TYPE     42     69     63
D71V5, multiclass
[1] "Remove cluster labels:" "GPATCH4 MUTATED"       
clus
  GPATCH4 MUTATED GPATCH4 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4402 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-05-4405        TCGA-05-4410        TCGA-05-4417        TCGA-05-4418 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-05-4420        TCGA-05-4422        TCGA-05-4426        TCGA-05-4430 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-05-5420        TCGA-05-5423        TCGA-05-5429        TCGA-05-5715 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-38-4626        TCGA-38-4627        TCGA-38-6178        TCGA-44-2656 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-2657        TCGA-44-2661        TCGA-44-2665        TCGA-44-3396 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-3919        TCGA-44-4112        TCGA-44-5645        TCGA-44-6145 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-6146        TCGA-44-6147        TCGA-44-6774        TCGA-44-6775 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7043        TCGA-95-7567 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPATCH4 MUTATED        0      0      2      0      0
  GPATCH4 WILD-TYPE     39     32     41     30     32
D71V6, multiclass
[1] "Remove cluster labels:" "GPATCH4 MUTATED"       
clus
  GPATCH4 MUTATED GPATCH4 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4402 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-05-4405        TCGA-05-4410        TCGA-05-4417        TCGA-05-4418 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-05-4420        TCGA-05-4422        TCGA-05-4426        TCGA-05-4430 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-05-5420        TCGA-05-5423        TCGA-05-5429        TCGA-05-5715 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-38-4626        TCGA-38-4627        TCGA-38-6178        TCGA-44-2656 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-2657        TCGA-44-2661        TCGA-44-2665        TCGA-44-3396 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-3919        TCGA-44-4112        TCGA-44-5645        TCGA-44-6145 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-6146        TCGA-44-6147        TCGA-44-6774        TCGA-44-6775 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7043        TCGA-95-7567 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"GPATCH4 WILD-TYPE" "GPATCH4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH4 MUTATED        1      5      2
  GPATCH4 WILD-TYPE    149    180    141
D71V7, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               5               180
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GPATCH4 MUTATED        0      2      3      0      0      2      1
  GPATCH4 WILD-TYPE     72    107     87     44     49     44     67
D71V8, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               2               107
  CLUS_3               3                87
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               2                44
  CLUS_7               1                67
[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
  GPATCH4 MUTATED        0      7      1
  GPATCH4 WILD-TYPE    175    204     89
D71V9, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               0               175
  CLUS_2               7               204
  CLUS_3               1                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
  GPATCH4 MUTATED        0      2      1      5
  GPATCH4 WILD-TYPE     70    184    130     84
D71V10, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               184
  CLUS_3               1               130
  CLUS_4               5                84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPATCH4 MUTATED        1      3      3
  GPATCH4 WILD-TYPE    140    179     86
D71V11, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               3               179
  CLUS_3               3                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
  GPATCH4 MUTATED        1      6      0
  GPATCH4 WILD-TYPE     93    227     85
D71V12, multiclass
        clus
vv       GPATCH4 MUTATED GPATCH4 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               6               227
  CLUS_3               0                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"

Clustering(72) Variable = NR4A2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NR4A2 MUTATED        0      1      0      0
  NR4A2 WILD-TYPE      5      6      5      3
D72V1, multiclass
[1] "Remove cluster labels:" "NR4A2 MUTATED"         
clus
  NR4A2 MUTATED NR4A2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR4A2 MUTATED        0      1      0
  NR4A2 WILD-TYPE      7      8      4
D72V2, multiclass
[1] "Remove cluster labels:" "NR4A2 MUTATED"         
clus
  NR4A2 MUTATED NR4A2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" "NR4A2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NR4A2 MUTATED        2     10      1      4
  NR4A2 WILD-TYPE     63    200     71    127
D72V3, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2            10             200
  CLUS_3             1              71
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR4A2 MUTATED        5      3      8
  NR4A2 WILD-TYPE    126    135    153
D72V4, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             5             126
  CLUS_2             3             135
  CLUS_3             8             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR4A2 MUTATED        1      1      1
  NR4A2 WILD-TYPE     41     70     62
D72V5, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NR4A2 MUTATED        0      0      0      2      1
  NR4A2 WILD-TYPE     39     32     43     28     31
D72V6, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             2              28
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR4A2 MUTATED        2     13      2
  NR4A2 WILD-TYPE    148    172    141
D72V7, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             2             148
  CLUS_2            13             172
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NR4A2 MUTATED        0      9      4      1      1      1      1
  NR4A2 WILD-TYPE     72    100     86     43     48     45     67
D72V8, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             9             100
  CLUS_3             4              86
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             1              67
[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
  NR4A2 MUTATED        4      8      5
  NR4A2 WILD-TYPE    171    203     85
D72V9, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             8             203
  CLUS_3             5              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
  NR4A2 MUTATED        2     10      1      4
  NR4A2 WILD-TYPE     68    176    130     85
D72V10, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2            10             176
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NR4A2 MUTATED        5      5      6
  NR4A2 WILD-TYPE    136    177     83
D72V11, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             5             136
  CLUS_2             5             177
  CLUS_3             6              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
  NR4A2 MUTATED        1     12      3
  NR4A2 WILD-TYPE     93    221     82
D72V12, multiclass
        clus
vv       NR4A2 MUTATED NR4A2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2            12             221
  CLUS_3             3              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"

Clustering(73) Variable = ABHD12B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABHD12B MUTATED        0      0      0      0
  ABHD12B WILD-TYPE      5      7      5      3
D73V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ABHD12B MUTATED        0      0      0
  ABHD12B WILD-TYPE      7      9      4
D73V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABHD12B MUTATED        2      1      1      3
  ABHD12B WILD-TYPE     63    209     71    128
D73V3, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2                63
  CLUS_2               1               209
  CLUS_3               1                71
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ABHD12B MUTATED        0      2      4
  ABHD12B WILD-TYPE    131    136    157
D73V4, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0               131
  CLUS_2               2               136
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ABHD12B MUTATED        1      1      1
  ABHD12B WILD-TYPE     41     70     62
D73V5, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1                70
  CLUS_3               1                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABHD12B MUTATED        2      0      0      1      0
  ABHD12B WILD-TYPE     37     32     43     29     32
D73V6, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2                37
  CLUS_2               0                32
  CLUS_3               0                43
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ABHD12B MUTATED        2      3      2
  ABHD12B WILD-TYPE    148    182    141
D73V7, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2               148
  CLUS_2               3               182
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ABHD12B MUTATED        1      1      2      1      1      1      0
  ABHD12B WILD-TYPE     71    108     88     43     48     45     68
D73V8, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               1                71
  CLUS_2               1               108
  CLUS_3               2                88
  CLUS_4               1                43
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               0                68
[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
  ABHD12B MUTATED        0      5      2
  ABHD12B WILD-TYPE    175    206     88
D73V9, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0               175
  CLUS_2               5               206
  CLUS_3               2                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
  ABHD12B MUTATED        0      3      2      2
  ABHD12B WILD-TYPE     70    183    129     87
D73V10, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               183
  CLUS_3               2               129
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ABHD12B MUTATED        2      2      2
  ABHD12B WILD-TYPE    139    180     87
D73V11, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2               139
  CLUS_2               2               180
  CLUS_3               2                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
  ABHD12B MUTATED        0      4      2
  ABHD12B WILD-TYPE     94    229     83
D73V12, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0                94
  CLUS_2               4               229
  CLUS_3               2                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"

Clustering(74) Variable = FNDC7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FNDC7 MUTATED        0      1      0      0
  FNDC7 WILD-TYPE      5      6      5      3
D74V1, multiclass
[1] "Remove cluster labels:" "FNDC7 MUTATED"         
clus
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        0      1      0
  FNDC7 WILD-TYPE      7      8      4
D74V2, multiclass
[1] "Remove cluster labels:" "FNDC7 MUTATED"         
clus
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FNDC7 MUTATED        0      7      1      2
  FNDC7 WILD-TYPE     65    203     71    129
D74V3, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             7             203
  CLUS_3             1              71
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        1      2      5
  FNDC7 WILD-TYPE    130    136    156
D74V4, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             2             136
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        1      0      0
  FNDC7 WILD-TYPE     41     71     63
D74V5, multiclass
[1] "Remove cluster labels:" "FNDC7 MUTATED"         
clus
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7947      TCGA-95-7948 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-97-7546      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FNDC7 MUTATED        0      0      0      0      1
  FNDC7 WILD-TYPE     39     32     43     30     31
D74V6, multiclass
[1] "Remove cluster labels:" "FNDC7 MUTATED"         
clus
  FNDC7 MUTATED FNDC7 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7947      TCGA-95-7948 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-97-7546      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" "FNDC7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        3      5      2
  FNDC7 WILD-TYPE    147    180    141
D74V7, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FNDC7 MUTATED        1      4      1      3      0      0      1
  FNDC7 WILD-TYPE     71    105     89     41     49     46     67
D74V8, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             1              89
  CLUS_4             3              41
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             1              67
[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
  FNDC7 MUTATED        3      3      3
  FNDC7 WILD-TYPE    172    208     87
D74V9, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             3             208
  CLUS_3             3              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
  FNDC7 MUTATED        1      5      2      1
  FNDC7 WILD-TYPE     69    181    129     88
D74V10, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             2             129
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FNDC7 MUTATED        1      5      1
  FNDC7 WILD-TYPE    140    177     88
D74V11, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             5             177
  CLUS_3             1              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
  FNDC7 MUTATED        3      3      1
  FNDC7 WILD-TYPE     91    230     84
D74V12, multiclass
        clus
vv       FNDC7 MUTATED FNDC7 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(75) Variable = RIT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIT1 MUTATED        0      0      0      0
  RIT1 WILD-TYPE      5      7      5      3
D75V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        0      0      0
  RIT1 WILD-TYPE      7      9      4
D75V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIT1 MUTATED        1      3      4      0
  RIT1 WILD-TYPE     64    207     68    131
D75V3, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            3            207
  CLUS_3            4             68
  CLUS_4            0            131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        1      2      3
  RIT1 WILD-TYPE    130    136    158
D75V4, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            2            136
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        1      1      2
  RIT1 WILD-TYPE     41     70     61
D75V5, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            2             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
  RIT1 MUTATED        1      1      0      2      0
  RIT1 WILD-TYPE     38     31     43     28     32
D75V6, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            1             31
  CLUS_3            0             43
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        2      3      3
  RIT1 WILD-TYPE    148    182    140
D75V7, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            3            182
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RIT1 MUTATED        0      2      0      2      1      2      1
  RIT1 WILD-TYPE     72    107     90     42     48     44     67
D75V8, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            0             90
  CLUS_4            2             42
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            1             67
[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
  RIT1 MUTATED        2      2      3
  RIT1 WILD-TYPE    173    209     87
D75V9, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            2            209
  CLUS_3            3             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
  RIT1 MUTATED        1      3      2      1
  RIT1 WILD-TYPE     69    183    129     88
D75V10, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            2            129
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        3      3      0
  RIT1 WILD-TYPE    138    179     89
D75V11, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            3            179
  CLUS_3            0             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
  RIT1 MUTATED        3      2      1
  RIT1 WILD-TYPE     91    231     84
D75V12, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            3             91
  CLUS_2            2            231
  CLUS_3            1             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"

Clustering(76) Variable = ASCL3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASCL3 MUTATED        0      0      0      0
  ASCL3 WILD-TYPE      5      7      5      3
D76V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        0      0      0
  ASCL3 WILD-TYPE      7      9      4
D76V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASCL3 MUTATED        0      2      2      3
  ASCL3 WILD-TYPE     65    208     70    128
D76V3, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        0      2      3
  ASCL3 WILD-TYPE    131    136    158
D76V4, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        0      2      1
  ASCL3 WILD-TYPE     42     69     62
D76V5, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2              69
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASCL3 MUTATED        1      0      2      0      0
  ASCL3 WILD-TYPE     38     32     41     30     32
D76V6, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        1      5      1
  ASCL3 WILD-TYPE    149    180    142
D76V7, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             5             180
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ASCL3 MUTATED        1      2      2      0      1      1      0
  ASCL3 WILD-TYPE     71    107     88     44     48     45     68
D76V8, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  ASCL3 MUTATED        0      4      3
  ASCL3 WILD-TYPE    175    207     87
D76V9, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             4             207
  CLUS_3             3              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
  ASCL3 MUTATED        0      2      1      4
  ASCL3 WILD-TYPE     70    184    130     85
D76V10, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        1      3      1
  ASCL3 WILD-TYPE    140    179     88
D76V11, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             3             179
  CLUS_3             1              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
  ASCL3 MUTATED        2      3      0
  ASCL3 WILD-TYPE     92    230     85
D76V12, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             3             230
  CLUS_3             0              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"

Clustering(77) Variable = CD84 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD84 MUTATED        0      0      0      0
  CD84 WILD-TYPE      5      7      5      3
D77V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        0      0      0
  CD84 WILD-TYPE      7      9      4
D77V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD84 MUTATED        2      2      0      2
  CD84 WILD-TYPE     63    208     72    129
D77V3, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2            208
  CLUS_3            0             72
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        1      4      0
  CD84 WILD-TYPE    130    134    161
D77V4, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            4            134
  CLUS_3            0            161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        0      2      0
  CD84 WILD-TYPE     42     69     63
D77V5, multiclass
[1] "Remove cluster labels:" "CD84 MUTATED"          
clus
  CD84 MUTATED CD84 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4402 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD84 MUTATED        0      0      2      0      0
  CD84 WILD-TYPE     39     32     41     30     32
D77V6, multiclass
[1] "Remove cluster labels:" "CD84 MUTATED"          
clus
  CD84 MUTATED CD84 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4402 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" "CD84 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"CD84 WILD-TYPE" "CD84 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        1      4      1
  CD84 WILD-TYPE    149    181    142
D77V7, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            4            181
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CD84 MUTATED        0      2      1      1      1      1      0
  CD84 WILD-TYPE     72    107     89     43     48     45     68
D77V8, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            1             89
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  CD84 MUTATED        2      4      0
  CD84 WILD-TYPE    173    207     90
D77V9, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            4            207
  CLUS_3            0             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
  CD84 MUTATED        1      3      0      2
  CD84 WILD-TYPE     69    183    131     87
D77V10, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            0            131
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD84 MUTATED        1      3      1
  CD84 WILD-TYPE    140    179     88
D77V11, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            1             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
  CD84 MUTATED        0      4      1
  CD84 WILD-TYPE     94    229     84
D77V12, multiclass
        clus
vv       CD84 MUTATED CD84 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            4            229
  CLUS_3            1             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"

Clustering(78) Variable = GYPC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GYPC MUTATED        0      0      0      0
  GYPC WILD-TYPE      5      7      5      3
D78V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GYPC MUTATED        0      0      0
  GYPC WILD-TYPE      7      9      4
D78V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GYPC MUTATED        1      0      0      5
  GYPC WILD-TYPE     64    210     72    126
D78V3, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            1             64
  CLUS_2            0            210
  CLUS_3            0             72
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GYPC MUTATED        0      2      4
  GYPC WILD-TYPE    131    136    157
D78V4, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            0            131
  CLUS_2            2            136
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GYPC MUTATED        2      2      0
  GYPC WILD-TYPE     40     69     63
D78V5, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            2             40
  CLUS_2            2             69
  CLUS_3            0             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 CLUS_4 CLUS_5
  GYPC MUTATED        1      1      1      1      0
  GYPC WILD-TYPE     38     31     42     29     32
D78V6, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            1             38
  CLUS_2            1             31
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GYPC MUTATED        3      2      1
  GYPC WILD-TYPE    147    183    142
D78V7, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            3            147
  CLUS_2            2            183
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GYPC MUTATED        0      1      3      0      1      0      1
  GYPC WILD-TYPE     72    108     87     44     48     46     67
D78V8, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            0             46
  CLUS_7            1             67
[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
  GYPC MUTATED        1      5      0
  GYPC WILD-TYPE    174    206     90
D78V9, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            1            174
  CLUS_2            5            206
  CLUS_3            0             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
  GYPC MUTATED        0      3      3      0
  GYPC WILD-TYPE     70    183    128     89
D78V10, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            183
  CLUS_3            3            128
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GYPC MUTATED        1      3      2
  GYPC WILD-TYPE    140    179     87
D78V11, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            2             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
  GYPC MUTATED        0      4      2
  GYPC WILD-TYPE     94    229     83
D78V12, multiclass
        clus
vv       GYPC MUTATED GYPC WILD-TYPE
  CLUS_1            0             94
  CLUS_2            4            229
  CLUS_3            2             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"

Clustering(79) Variable = MYH7 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYH7 MUTATED        1      1      0      1
  MYH7 WILD-TYPE      4      6      5      2
D79V1, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            1              4
  CLUS_2            1              6
  CLUS_3            0              5
  CLUS_4            1              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH7 MUTATED        1      1      1
  MYH7 WILD-TYPE      6      8      3
D79V2, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            1              8
  CLUS_3            1              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYH7 MUTATED        7     18      9     18
  MYH7 WILD-TYPE     58    192     63    113
D79V3, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            7             58
  CLUS_2           18            192
  CLUS_3            9             63
  CLUS_4           18            113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH7 MUTATED        7     16     21
  MYH7 WILD-TYPE    124    122    140
D79V4, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            7            124
  CLUS_2           16            122
  CLUS_3           21            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH7 MUTATED        5      6      5
  MYH7 WILD-TYPE     37     65     58
D79V5, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            5             37
  CLUS_2            6             65
  CLUS_3            5             58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYH7 MUTATED        2      4      6      0      4
  MYH7 WILD-TYPE     37     28     37     30     28
D79V6, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            4             28
  CLUS_3            6             37
  CLUS_4            0             30
  CLUS_5            4             28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH7 MUTATED       15     20     17
  MYH7 WILD-TYPE    135    165    126
D79V7, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1           15            135
  CLUS_2           20            165
  CLUS_3           17            126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MYH7 MUTATED        6     11     12      2      7      5      9
  MYH7 WILD-TYPE     66     98     78     42     42     41     59
D79V8, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            6             66
  CLUS_2           11             98
  CLUS_3           12             78
  CLUS_4            2             42
  CLUS_5            7             42
  CLUS_6            5             41
  CLUS_7            9             59
[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
  MYH7 MUTATED       14     30      7
  MYH7 WILD-TYPE    161    181     83
D79V9, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1           14            161
  CLUS_2           30            181
  CLUS_3            7             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
  MYH7 MUTATED        4     18     13     16
  MYH7 WILD-TYPE     66    168    118     73
D79V10, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            4             66
  CLUS_2           18            168
  CLUS_3           13            118
  CLUS_4           16             73
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYH7 MUTATED       17     16      6
  MYH7 WILD-TYPE    124    166     83
D79V11, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1           17            124
  CLUS_2           16            166
  CLUS_3            6             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
  MYH7 MUTATED        6     24      9
  MYH7 WILD-TYPE     88    209     76
D79V12, multiclass
        clus
vv       MYH7 MUTATED MYH7 WILD-TYPE
  CLUS_1            6             88
  CLUS_2           24            209
  CLUS_3            9             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"

Clustering(80) Variable = UROC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UROC1 MUTATED        0      1      0      0
  UROC1 WILD-TYPE      5      6      5      3
D80V1, multiclass
[1] "Remove cluster labels:" "UROC1 MUTATED"         
clus
  UROC1 MUTATED UROC1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1677 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UROC1 MUTATED        0      1      0
  UROC1 WILD-TYPE      7      8      4
D80V2, multiclass
[1] "Remove cluster labels:" "UROC1 MUTATED"         
clus
  UROC1 MUTATED UROC1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1677 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"UROC1 WILD-TYPE" "UROC1 WILD-TYPE" "UROC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UROC1 MUTATED        2      6      3      4
  UROC1 WILD-TYPE     63    204     69    127
D80V3, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             6             204
  CLUS_3             3              69
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UROC1 MUTATED        3      3      7
  UROC1 WILD-TYPE    128    135    154
D80V4, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UROC1 MUTATED        0      5      2
  UROC1 WILD-TYPE     42     66     61
D80V5, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             5              66
  CLUS_3             2              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
  UROC1 MUTATED        3      0      3      1      0
  UROC1 WILD-TYPE     36     32     40     29     32
D80V6, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             0              32
  CLUS_3             3              40
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UROC1 MUTATED        4      9      2
  UROC1 WILD-TYPE    146    176    141
D80V7, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             9             176
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  UROC1 MUTATED        1      6      3      1      1      0      3
  UROC1 WILD-TYPE     71    103     87     43     48     46     65
D80V8, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             6             103
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             3              65
[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
  UROC1 MUTATED        0     12      3
  UROC1 WILD-TYPE    175    199     87
D80V9, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             0             175
  CLUS_2            12             199
  CLUS_3             3              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
  UROC1 MUTATED        0      7      3      5
  UROC1 WILD-TYPE     70    179    128     84
D80V10, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             179
  CLUS_3             3             128
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UROC1 MUTATED        4      6      3
  UROC1 WILD-TYPE    137    176     86
D80V11, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             6             176
  CLUS_3             3              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
  UROC1 MUTATED        1     11      1
  UROC1 WILD-TYPE     93    222     84
D80V12, multiclass
        clus
vv       UROC1 MUTATED UROC1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2            11             222
  CLUS_3             1              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"

Clustering(81) Variable = HSF5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSF5 MUTATED        0      0      0      0
  HSF5 WILD-TYPE      5      7      5      3
D81V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HSF5 MUTATED        0      0      0
  HSF5 WILD-TYPE      7      9      4
D81V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSF5 MUTATED        0      4      3      6
  HSF5 WILD-TYPE     65    206     69    125
D81V3, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            4            206
  CLUS_3            3             69
  CLUS_4            6            125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HSF5 MUTATED        2      5      5
  HSF5 WILD-TYPE    129    133    156
D81V4, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            5            133
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HSF5 MUTATED        0      2      3
  HSF5 WILD-TYPE     42     69     60
D81V5, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2             69
  CLUS_3            3             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
  HSF5 MUTATED        1      0      3      1      0
  HSF5 WILD-TYPE     38     32     40     29     32
D81V6, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HSF5 MUTATED        4      7      2
  HSF5 WILD-TYPE    146    178    141
D81V7, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            4            146
  CLUS_2            7            178
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HSF5 MUTATED        0      5      4      1      0      1      2
  HSF5 WILD-TYPE     72    104     86     43     49     45     66
D81V8, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            5            104
  CLUS_3            4             86
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            2             66
[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
  HSF5 MUTATED        5      8      0
  HSF5 WILD-TYPE    170    203     90
D81V9, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            5            170
  CLUS_2            8            203
  CLUS_3            0             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
  HSF5 MUTATED        2      5      2      4
  HSF5 WILD-TYPE     68    181    129     85
D81V10, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            181
  CLUS_3            2            129
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HSF5 MUTATED        5      6      1
  HSF5 WILD-TYPE    136    176     88
D81V11, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            5            136
  CLUS_2            6            176
  CLUS_3            1             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
  HSF5 MUTATED        2      8      2
  HSF5 WILD-TYPE     92    225     83
D81V12, multiclass
        clus
vv       HSF5 MUTATED HSF5 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            8            225
  CLUS_3            2             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"

Clustering(82) Variable = HSPA8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSPA8 MUTATED        0      0      0      1
  HSPA8 WILD-TYPE      5      7      5      2
D82V1, multiclass
[1] "Remove cluster labels:" "HSPA8 MUTATED"         
clus
  HSPA8 MUTATED HSPA8 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HSPA8 MUTATED        0      0      1
  HSPA8 WILD-TYPE      7      9      3
D82V2, multiclass
[1] "Remove cluster labels:" "HSPA8 MUTATED"         
clus
  HSPA8 MUTATED HSPA8 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" "HSPA8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSPA8 MUTATED        0      2      2      5
  HSPA8 WILD-TYPE     65    208     70    126
D82V3, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HSPA8 MUTATED        0      3      4
  HSPA8 WILD-TYPE    131    135    157
D82V4, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HSPA8 MUTATED        1      1      1
  HSPA8 WILD-TYPE     41     70     62
D82V5, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPA8 MUTATED        2      0      0      1      0
  HSPA8 WILD-TYPE     37     32     43     29     32
D82V6, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HSPA8 MUTATED        2      5      2
  HSPA8 WILD-TYPE    148    180    141
D82V7, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HSPA8 MUTATED        0      2      5      0      0      1      1
  HSPA8 WILD-TYPE     72    107     85     44     49     45     67
D82V8, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             5              85
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  HSPA8 MUTATED        0      8      0
  HSPA8 WILD-TYPE    175    203     90
D82V9, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             8             203
  CLUS_3             0              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
  HSPA8 MUTATED        0      2      2      4
  HSPA8 WILD-TYPE     70    184    129     85
D82V10, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             2             129
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HSPA8 MUTATED        4      3      0
  HSPA8 WILD-TYPE    137    179     89
D82V11, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             3             179
  CLUS_3             0              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
  HSPA8 MUTATED        1      5      1
  HSPA8 WILD-TYPE     93    228     84
D82V12, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             5             228
  CLUS_3             1              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"

Clustering(83) Variable = HTRA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTRA1 MUTATED        0      0      0      0
  HTRA1 WILD-TYPE      5      7      5      3
D83V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        0      0      0
  HTRA1 WILD-TYPE      7      9      4
D83V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTRA1 MUTATED        0      3      3      4
  HTRA1 WILD-TYPE     65    207     69    127
D83V3, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             3             207
  CLUS_3             3              69
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        1      6      3
  HTRA1 WILD-TYPE    130    132    158
D83V4, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             6             132
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        1      1      0
  HTRA1 WILD-TYPE     41     70     63
D83V5, multiclass
[1] "Remove cluster labels:" "HTRA1 MUTATED"         
clus
  HTRA1 MUTATED HTRA1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6761      TCGA-49-6767 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HTRA1 MUTATED        0      1      1      0      0
  HTRA1 WILD-TYPE     39     31     42     30     32
D83V6, multiclass
[1] "Remove cluster labels:" "HTRA1 MUTATED"         
clus
  HTRA1 MUTATED HTRA1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6761      TCGA-49-6767 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"HTRA1 WILD-TYPE" "HTRA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        3      4      3
  HTRA1 WILD-TYPE    147    181    140
D83V7, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HTRA1 MUTATED        1      1      3      2      1      1      1
  HTRA1 WILD-TYPE     71    108     87     42     48     45     67
D83V8, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             1             108
  CLUS_3             3              87
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             1              67
[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
  HTRA1 MUTATED        4      5      1
  HTRA1 WILD-TYPE    171    206     89
D83V9, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             5             206
  CLUS_3             1              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
  HTRA1 MUTATED        3      2      1      4
  HTRA1 WILD-TYPE     67    184    130     85
D83V10, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2             184
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        3      5      2
  HTRA1 WILD-TYPE    138    177     87
D83V11, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             2              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
  HTRA1 MUTATED        3      6      1
  HTRA1 WILD-TYPE     91    227     84
D83V12, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             6             227
  CLUS_3             1              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"

Clustering(84) Variable = DST MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DST MUTATED        1      2      0      1
  DST WILD-TYPE      4      5      5      2
D84V1, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           1             4
  CLUS_2           2             5
  CLUS_3           0             5
  CLUS_4           1             2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED        1      2      1
  DST WILD-TYPE      6      7      3
D84V2, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           1             6
  CLUS_2           2             7
  CLUS_3           1             3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DST MUTATED       11     31     17     30
  DST WILD-TYPE     54    179     55    101
D84V3, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          11            54
  CLUS_2          31           179
  CLUS_3          17            55
  CLUS_4          30           101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED       15     28     34
  DST WILD-TYPE    116    110    127
D84V4, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          15           116
  CLUS_2          28           110
  CLUS_3          34           127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED        8      8     13
  DST WILD-TYPE     34     63     50
D84V5, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           8            34
  CLUS_2           8            63
  CLUS_3          13            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
  DST MUTATED        3      6      9      5      6
  DST WILD-TYPE     36     26     34     25     26
D84V6, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           3            36
  CLUS_2           6            26
  CLUS_3           9            34
  CLUS_4           5            25
  CLUS_5           6            26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED       24     37     28
  DST WILD-TYPE    126    148    115
D84V7, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          24           126
  CLUS_2          37           148
  CLUS_3          28           115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DST MUTATED       11     23     21      6     12      5     11
  DST WILD-TYPE     61     86     69     38     37     41     57
D84V8, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          11            61
  CLUS_2          23            86
  CLUS_3          21            69
  CLUS_4           6            38
  CLUS_5          12            37
  CLUS_6           5            41
  CLUS_7          11            57
[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
  DST MUTATED       28     49     11
  DST WILD-TYPE    147    162     79
D84V9, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          28           147
  CLUS_2          49           162
  CLUS_3          11            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
  DST MUTATED       12     32     14     30
  DST WILD-TYPE     58    154    117     59
D84V10, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          12            58
  CLUS_2          32           154
  CLUS_3          14           117
  CLUS_4          30            59
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  DST MUTATED       29     31     14
  DST WILD-TYPE    112    151     75
D84V11, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1          29           112
  CLUS_2          31           151
  CLUS_3          14            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
  DST MUTATED        9     48     17
  DST WILD-TYPE     85    185     68
D84V12, multiclass
        clus
vv       DST MUTATED DST WILD-TYPE
  CLUS_1           9            85
  CLUS_2          48           185
  CLUS_3          17            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"

Clustering(85) Variable = SRMS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRMS MUTATED        0      0      0      0
  SRMS WILD-TYPE      5      7      5      3
D85V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRMS MUTATED        0      0      0
  SRMS WILD-TYPE      7      9      4
D85V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRMS MUTATED        3      1      0      6
  SRMS WILD-TYPE     62    209     72    125
D85V3, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            3             62
  CLUS_2            1            209
  CLUS_3            0             72
  CLUS_4            6            125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRMS MUTATED        1      3      5
  SRMS WILD-TYPE    130    135    156
D85V4, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRMS MUTATED        1      1      1
  SRMS WILD-TYPE     41     70     62
D85V5, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRMS MUTATED        0      0      2      0      1
  SRMS WILD-TYPE     39     32     41     30     31
D85V6, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            0             30
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRMS MUTATED        0      6      4
  SRMS WILD-TYPE    150    179    139
D85V7, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            0            150
  CLUS_2            6            179
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SRMS MUTATED        1      3      2      1      2      0      1
  SRMS WILD-TYPE     71    106     88     43     47     46     67
D85V8, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            2             88
  CLUS_4            1             43
  CLUS_5            2             47
  CLUS_6            0             46
  CLUS_7            1             67
[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
  SRMS MUTATED        1      6      2
  SRMS WILD-TYPE    174    205     88
D85V9, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            1            174
  CLUS_2            6            205
  CLUS_3            2             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
  SRMS MUTATED        1      5      1      2
  SRMS WILD-TYPE     69    181    130     87
D85V10, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            181
  CLUS_3            1            130
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRMS MUTATED        2      7      0
  SRMS WILD-TYPE    139    175     89
D85V11, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            2            139
  CLUS_2            7            175
  CLUS_3            0             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
  SRMS MUTATED        2      7      0
  SRMS WILD-TYPE     92    226     85
D85V12, multiclass
        clus
vv       SRMS MUTATED SRMS WILD-TYPE
  CLUS_1            2             92
  CLUS_2            7            226
  CLUS_3            0             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"

Clustering(86) Variable = PTPRU MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRU MUTATED        0      0      0      1
  PTPRU WILD-TYPE      5      7      5      2
D86V1, multiclass
[1] "Remove cluster labels:" "PTPRU MUTATED"         
clus
  PTPRU MUTATED PTPRU WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRU MUTATED        0      0      1
  PTPRU WILD-TYPE      7      9      3
D86V2, multiclass
[1] "Remove cluster labels:" "PTPRU MUTATED"         
clus
  PTPRU MUTATED PTPRU WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PTPRU WILD-TYPE" "PTPRU WILD-TYPE" "PTPRU WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRU MUTATED        2      3      2     11
  PTPRU WILD-TYPE     63    207     70    120
D86V3, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3             207
  CLUS_3             2              70
  CLUS_4            11             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRU MUTATED        1      5      8
  PTPRU WILD-TYPE    130    133    153
D86V4, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             1             130
  CLUS_2             5             133
  CLUS_3             8             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRU MUTATED        2      2      2
  PTPRU WILD-TYPE     40     69     61
D86V5, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2              69
  CLUS_3             2              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
  PTPRU MUTATED        0      2      2      0      2
  PTPRU WILD-TYPE     39     30     41     30     30
D86V6, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             0              39
  CLUS_2             2              30
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRU MUTATED        1     12      5
  PTPRU WILD-TYPE    149    173    138
D86V7, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             1             149
  CLUS_2            12             173
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTPRU MUTATED        2      6      8      0      1      1      0
  PTPRU WILD-TYPE     70    103     82     44     48     45     68
D86V8, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             2              70
  CLUS_2             6             103
  CLUS_3             8              82
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  PTPRU MUTATED        1     14      2
  PTPRU WILD-TYPE    174    197     88
D86V9, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             1             174
  CLUS_2            14             197
  CLUS_3             2              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
  PTPRU MUTATED        0      9      1      7
  PTPRU WILD-TYPE     70    177    130     82
D86V10, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             0              70
  CLUS_2             9             177
  CLUS_3             1             130
  CLUS_4             7              82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRU MUTATED        4      6      3
  PTPRU WILD-TYPE    137    176     86
D86V11, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             4             137
  CLUS_2             6             176
  CLUS_3             3              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
  PTPRU MUTATED        1     11      1
  PTPRU WILD-TYPE     93    222     84
D86V12, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             1              93
  CLUS_2            11             222
  CLUS_3             1              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"

Clustering(87) Variable = ADAM10 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM10 MUTATED        0      0      0      1
  ADAM10 WILD-TYPE      5      7      5      2
D87V1, multiclass
[1] "Remove cluster labels:" "ADAM10 MUTATED"        
clus
  ADAM10 MUTATED ADAM10 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM10 MUTATED        0      0      1
  ADAM10 WILD-TYPE      7      9      3
D87V2, multiclass
[1] "Remove cluster labels:" "ADAM10 MUTATED"        
clus
  ADAM10 MUTATED ADAM10 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" "ADAM10 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM10 MUTATED        3      1      1      3
  ADAM10 WILD-TYPE     62    209     71    128
D87V3, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              1              209
  CLUS_3              1               71
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM10 MUTATED        0      4      3
  ADAM10 WILD-TYPE    131    134    158
D87V4, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              4              134
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM10 MUTATED        1      0      2
  ADAM10 WILD-TYPE     41     71     61
D87V5, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              0               71
  CLUS_3              2               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
  ADAM10 MUTATED        0      1      0      1      1
  ADAM10 WILD-TYPE     39     31     43     29     31
D87V6, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              0               43
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM10 MUTATED        1      3      4
  ADAM10 WILD-TYPE    149    182    139
D87V7, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              3              182
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADAM10 MUTATED        0      3      3      1      1      0      0
  ADAM10 WILD-TYPE     72    106     87     43     48     46     68
D87V8, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              3               87
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              0               68
[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
  ADAM10 MUTATED        1      6      1
  ADAM10 WILD-TYPE    174    205     89
D87V9, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              6              205
  CLUS_3              1               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
  ADAM10 MUTATED        1      3      0      4
  ADAM10 WILD-TYPE     69    183    131     85
D87V10, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              183
  CLUS_3              0              131
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM10 MUTATED        1      4      2
  ADAM10 WILD-TYPE    140    178     87
D87V11, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              1              140
  CLUS_2              4              178
  CLUS_3              2               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
  ADAM10 MUTATED        1      6      0
  ADAM10 WILD-TYPE     93    227     85
D87V12, multiclass
        clus
vv       ADAM10 MUTATED ADAM10 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              6              227
  CLUS_3              0               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"

Clustering(88) Variable = MRPS35 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPS35 MUTATED        0      0      0      0
  MRPS35 WILD-TYPE      5      7      5      3
D88V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS35 MUTATED        0      0      0
  MRPS35 WILD-TYPE      7      9      4
D88V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MRPS35 MUTATED        0      3      2      1
  MRPS35 WILD-TYPE     65    207     70    130
D88V3, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              0               65
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS35 MUTATED        2      3      0
  MRPS35 WILD-TYPE    129    135    161
D88V4, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              3              135
  CLUS_3              0              161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS35 MUTATED        0      0      2
  MRPS35 WILD-TYPE     42     71     61
D88V5, multiclass
[1] "Remove cluster labels:" "MRPS35 MUTATED"        
clus
  MRPS35 MUTATED MRPS35 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7671       TCGA-44-7672 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-4486       TCGA-49-4487       TCGA-49-4488       TCGA-49-4494 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MRPS35 MUTATED        0      0      1      1      0
  MRPS35 WILD-TYPE     39     32     42     29     32
D88V6, multiclass
[1] "Remove cluster labels:" "MRPS35 MUTATED"        
clus
  MRPS35 MUTATED MRPS35 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7671       TCGA-44-7672 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-4486       TCGA-49-4487       TCGA-49-4488       TCGA-49-4494 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"MRPS35 WILD-TYPE" "MRPS35 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS35 MUTATED        1      4      1
  MRPS35 WILD-TYPE    149    181    142
D88V7, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              4              181
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MRPS35 MUTATED        0      2      3      0      0      0      1
  MRPS35 WILD-TYPE     72    107     87     44     49     46     67
D88V8, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              3               87
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              1               67
[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
  MRPS35 MUTATED        2      4      0
  MRPS35 WILD-TYPE    173    207     90
D88V9, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              4              207
  CLUS_3              0               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
  MRPS35 MUTATED        1      2      1      2
  MRPS35 WILD-TYPE     69    184    130     87
D88V10, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              184
  CLUS_3              1              130
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MRPS35 MUTATED        3      2      0
  MRPS35 WILD-TYPE    138    180     89
D88V11, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              3              138
  CLUS_2              2              180
  CLUS_3              0               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
  MRPS35 MUTATED        1      3      1
  MRPS35 WILD-TYPE     93    230     84
D88V12, multiclass
        clus
vv       MRPS35 MUTATED MRPS35 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              3              230
  CLUS_3              1               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"

Clustering(89) Variable = ZNF608 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF608 MUTATED        0      0      0      0
  ZNF608 WILD-TYPE      5      7      5      3
D89V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        0      0      0
  ZNF608 WILD-TYPE      7      9      4
D89V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF608 MUTATED        3      3      2      1
  ZNF608 WILD-TYPE     62    207     70    130
D89V3, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        3      4      2
  ZNF608 WILD-TYPE    128    134    159
D89V4, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              4              134
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        0      0      0
  ZNF608 WILD-TYPE     42     71     63
D89V5, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF608 MUTATED        0      0      0      0      0
  ZNF608 WILD-TYPE     39     32     43     30     32
D89V6, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        1      3      5
  ZNF608 WILD-TYPE    149    182    138
D89V7, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              3              182
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF608 MUTATED        1      0      1      2      4      1      0
  ZNF608 WILD-TYPE     71    109     89     42     45     45     68
D89V8, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              0              109
  CLUS_3              1               89
  CLUS_4              2               42
  CLUS_5              4               45
  CLUS_6              1               45
  CLUS_7              0               68
[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
  ZNF608 MUTATED        2      6      1
  ZNF608 WILD-TYPE    173    205     89
D89V9, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              6              205
  CLUS_3              1               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
  ZNF608 MUTATED        0      4      2      3
  ZNF608 WILD-TYPE     70    182    129     86
D89V10, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              182
  CLUS_3              2              129
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        2      4      3
  ZNF608 WILD-TYPE    139    178     86
D89V11, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              4              178
  CLUS_3              3               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
  ZNF608 MUTATED        2      7      0
  ZNF608 WILD-TYPE     92    226     85
D89V12, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              2               92
  CLUS_2              7              226
  CLUS_3              0               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"

Clustering(90) Variable = ARHGAP32 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP32 MUTATED        0      1      1      0
  ARHGAP32 WILD-TYPE      5      6      4      3
D90V1, multiclass
[1] "Remove cluster labels:" "ARHGAP32 MUTATED"      
clus
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                 2                 18 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-44-3398         TCGA-44-3919         TCGA-55-1592 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-55-1595         TCGA-64-1676         TCGA-64-1677 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-67-3771         TCGA-67-3772         TCGA-67-3773 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        1      1      0
  ARHGAP32 WILD-TYPE      6      8      4
D90V2, multiclass
[1] "Remove cluster labels:" "ARHGAP32 MUTATED"      
clus
  ARHGAP32 MUTATED ARHGAP32 WILD-TYPE 
                 2                 18 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-44-3398         TCGA-44-3919         TCGA-55-1592 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-55-1595         TCGA-64-1676         TCGA-64-1677 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
        TCGA-67-3771         TCGA-67-3772         TCGA-67-3773 
"ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" "ARHGAP32 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP32 MUTATED        2      7      3      7
  ARHGAP32 WILD-TYPE     63    203     69    124
D90V3, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                7                203
  CLUS_3                3                 69
  CLUS_4                7                124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        3      6      9
  ARHGAP32 WILD-TYPE    128    132    152
D90V4, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                3                128
  CLUS_2                6                132
  CLUS_3                9                152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        1      0      3
  ARHGAP32 WILD-TYPE     41     71     60
D90V5, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                 71
  CLUS_3                3                 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
  ARHGAP32 MUTATED        0      0      2      0      2
  ARHGAP32 WILD-TYPE     39     32     41     30     30
D90V6, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                0                 32
  CLUS_3                2                 41
  CLUS_4                0                 30
  CLUS_5                2                 30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        3      9      7
  ARHGAP32 WILD-TYPE    147    176    136
D90V7, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                3                147
  CLUS_2                9                176
  CLUS_3                7                136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARHGAP32 MUTATED        0      4      7      2      4      0      2
  ARHGAP32 WILD-TYPE     72    105     83     42     45     46     66
D90V8, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                0                 72
  CLUS_2                4                105
  CLUS_3                7                 83
  CLUS_4                2                 42
  CLUS_5                4                 45
  CLUS_6                0                 46
  CLUS_7                2                 66
[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
  ARHGAP32 MUTATED        4     12      3
  ARHGAP32 WILD-TYPE    171    199     87
D90V9, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                4                171
  CLUS_2               12                199
  CLUS_3                3                 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
  ARHGAP32 MUTATED        4      8      1      6
  ARHGAP32 WILD-TYPE     66    178    130     83
D90V10, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                4                 66
  CLUS_2                8                178
  CLUS_3                1                130
  CLUS_4                6                 83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGAP32 MUTATED        2     10      4
  ARHGAP32 WILD-TYPE    139    172     85
D90V11, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                2                139
  CLUS_2               10                172
  CLUS_3                4                 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
  ARHGAP32 MUTATED        3     13      0
  ARHGAP32 WILD-TYPE     91    220     85
D90V12, multiclass
        clus
vv       ARHGAP32 MUTATED ARHGAP32 WILD-TYPE
  CLUS_1                3                 91
  CLUS_2               13                220
  CLUS_3                0                 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"

Clustering(91) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        1      0      0      0
  NRAS WILD-TYPE      4      7      5      3
D91V1, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"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      7      8      4
D91V2, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      0      0      3
  NRAS WILD-TYPE     65    210     72    128
D91V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             65
  CLUS_2            0            210
  CLUS_3            0             72
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1      1
  NRAS WILD-TYPE    131    137    160
D91V4, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            428 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-6178 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-38-7271     TCGA-38-A44F     TCGA-44-2656     TCGA-44-2665 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-3918     TCGA-44-4112     TCGA-44-5643     TCGA-44-5644 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-5645     TCGA-44-6144     TCGA-44-6145     TCGA-44-6146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6148     TCGA-44-6774     TCGA-44-6775 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6778     TCGA-44-6779 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7660     TCGA-44-7661     TCGA-44-7662 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7667     TCGA-44-7669     TCGA-44-7670     TCGA-44-7671 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7672     TCGA-44-8117     TCGA-44-8119     TCGA-44-8120 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-A479     TCGA-44-A47A     TCGA-44-A47B     TCGA-44-A47F 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6975     TCGA-55-6978 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6979     TCGA-55-6980     TCGA-55-6981     TCGA-55-6982 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6983     TCGA-55-6984     TCGA-55-6985     TCGA-55-6986 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6987     TCGA-55-7227     TCGA-55-7281     TCGA-55-7283 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7284     TCGA-55-7570     TCGA-55-7573     TCGA-55-7574 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7576     TCGA-55-7724     TCGA-55-7725     TCGA-55-7726 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7727     TCGA-55-7728     TCGA-55-7815     TCGA-55-7816 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7903     TCGA-55-7907     TCGA-55-7910     TCGA-55-7911 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7913     TCGA-55-7914     TCGA-55-7994     TCGA-55-7995 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8085     TCGA-55-8087     TCGA-55-8089     TCGA-55-8090 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8091     TCGA-55-8092     TCGA-55-8094     TCGA-55-8096 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8097     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8207     TCGA-55-8208     TCGA-55-8299 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8301     TCGA-55-8302     TCGA-55-8505     TCGA-55-8506 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8507     TCGA-55-8508     TCGA-55-8510     TCGA-55-8511 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8512     TCGA-55-8513     TCGA-55-8514     TCGA-55-8614 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8615     TCGA-55-8616     TCGA-55-8619     TCGA-55-8620 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8621     TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A490     TCGA-55-A491     TCGA-55-A492     TCGA-55-A493 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A494     TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-8395     TCGA-62-8397     TCGA-62-8398     TCGA-62-8399 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-8402     TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46S     TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A470     TCGA-62-A471     TCGA-62-A472     TCGA-64-1679 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-1681     TCGA-64-5774     TCGA-64-5775     TCGA-64-5778 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5779     TCGA-64-5781     TCGA-64-5815     TCGA-67-4679 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-67-6215     TCGA-67-6216     TCGA-67-6217     TCGA-69-7760 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7761     TCGA-69-7763     TCGA-69-7764     TCGA-69-7765 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7973     TCGA-69-7974     TCGA-69-7978     TCGA-69-7980 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-8253     TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-71-6725     TCGA-71-8520     TCGA-73-4658     TCGA-73-4676 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-5125 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-5126     TCGA-75-5146     TCGA-75-5147     TCGA-75-6203 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6206     TCGA-75-6207     TCGA-75-6211 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-6212     TCGA-75-6214     TCGA-75-7025     TCGA-75-7027 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7146     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5607 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-80-5608     TCGA-80-5611     TCGA-83-5908     TCGA-86-6562 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7701     TCGA-86-7711     TCGA-86-7713 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7714     TCGA-86-7953     TCGA-86-7954     TCGA-86-7955 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8054     TCGA-86-8055     TCGA-86-8056     TCGA-86-8073 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8074     TCGA-86-8075     TCGA-86-8076     TCGA-86-8278 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8279     TCGA-86-8280     TCGA-86-8281     TCGA-86-8358 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8359     TCGA-86-8585     TCGA-86-8668     TCGA-86-8669 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8671     TCGA-86-8672     TCGA-86-8673     TCGA-86-8674 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6828     TCGA-91-6829     TCGA-91-6830     TCGA-91-6831 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6836     TCGA-91-6840     TCGA-91-6847 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6848     TCGA-91-6849     TCGA-91-7771     TCGA-91-8496 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-7347     TCGA-93-7348     TCGA-93-8067     TCGA-93-A4JN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-7043     TCGA-95-7562     TCGA-95-7567     TCGA-95-7944 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-95-8039     TCGA-95-8494 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-A4VK     TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7547     TCGA-97-7552     TCGA-97-7553     TCGA-97-7554 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7937     TCGA-97-7938     TCGA-97-7941     TCGA-97-8171 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8172     TCGA-97-8174     TCGA-97-8175     TCGA-97-8176 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8177     TCGA-97-8179     TCGA-97-8547     TCGA-97-8552 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-A4LX     TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-A4M3     TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-99-7458     TCGA-99-8025     TCGA-99-8028     TCGA-99-8032 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-99-8033     TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-J2-A4AE     TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-L9-A443     TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MN-A4N5     TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A55A     TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      0      0
  NRAS WILD-TYPE     42     71     63
D91V5, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        0      0      0      0      0
  NRAS WILD-TYPE     39     32     43     30     32
D91V6, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      3      0
  NRAS WILD-TYPE    150    182    143
D91V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            150
  CLUS_2            3            182
  CLUS_3            0            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NRAS MUTATED        0      2      1      0      0      0      0
  NRAS WILD-TYPE     72    107     89     44     49     46     68
D91V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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        0      3      0
  NRAS WILD-TYPE    175    208     90
D91V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            175
  CLUS_2            3            208
  CLUS_3            0             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
  NRAS MUTATED        0      3      0      0
  NRAS WILD-TYPE     70    183    131     89
D91V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            183
  CLUS_3            0            131
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      0
  NRAS WILD-TYPE    140    181     89
D91V11, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            410 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-6178 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643     TCGA-44-5644 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-5645     TCGA-44-6144     TCGA-44-6145     TCGA-44-6146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6148     TCGA-44-6774     TCGA-44-6775 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6778     TCGA-44-6779 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7660     TCGA-44-7661     TCGA-44-7662 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7667     TCGA-44-7669     TCGA-44-7670     TCGA-44-7671 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7672     TCGA-44-8117     TCGA-44-8119     TCGA-44-8120 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F     TCGA-44-A47G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487     TCGA-49-4488 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4490     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6743     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5045     TCGA-50-5049 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5051     TCGA-50-5055     TCGA-50-5066     TCGA-50-5068 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5930     TCGA-50-5931     TCGA-50-5932 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5935     TCGA-50-5936     TCGA-50-5939 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5941     TCGA-50-5942     TCGA-50-5944     TCGA-50-5946 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-6590     TCGA-50-6591     TCGA-50-6592     TCGA-50-6593 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-6594     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-7109     TCGA-50-8457     TCGA-50-8459     TCGA-50-8460 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-53-7624     TCGA-53-7626     TCGA-53-7813     TCGA-53-A4EZ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-5899     TCGA-55-6543     TCGA-55-6642     TCGA-55-6712 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6968     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6972     TCGA-55-6978     TCGA-55-6979     TCGA-55-6980 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-6983     TCGA-55-6984 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6985     TCGA-55-6986     TCGA-55-6987     TCGA-55-7227 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7281     TCGA-55-7283     TCGA-55-7284     TCGA-55-7570 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7576     TCGA-55-7724 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7726     TCGA-55-7727     TCGA-55-7728     TCGA-55-7815 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7816     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8085     TCGA-55-8087     TCGA-55-8089     TCGA-55-8090 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8091     TCGA-55-8092     TCGA-55-8094     TCGA-55-8096 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8203     TCGA-55-8204     TCGA-55-8205     TCGA-55-8206 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8208     TCGA-55-8299     TCGA-55-8301     TCGA-55-8302 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8505     TCGA-55-8506     TCGA-55-8507     TCGA-55-8508 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8510     TCGA-55-8511     TCGA-55-8512     TCGA-55-8513 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8514     TCGA-55-8614     TCGA-55-8615     TCGA-55-8616 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8619     TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A492     TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395     TCGA-62-8397 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-8398     TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A472     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5775     TCGA-64-5778     TCGA-64-5779     TCGA-64-5781 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5815     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7765     TCGA-69-7973     TCGA-69-7974 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7978     TCGA-69-7980     TCGA-69-8253     TCGA-69-8254 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725     TCGA-71-8520 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-5122     TCGA-75-5125     TCGA-75-5126     TCGA-75-5146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-5147     TCGA-75-6203     TCGA-75-6205     TCGA-75-6206 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-7025     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7146     TCGA-78-7147 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7148     TCGA-78-7149     TCGA-78-7150     TCGA-78-7152 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7159 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7163     TCGA-78-7166 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7220     TCGA-78-7535     TCGA-78-7536 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7633     TCGA-78-8640     TCGA-78-8648     TCGA-78-8655 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-8660     TCGA-78-8662     TCGA-80-5607     TCGA-80-5608 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-80-5611     TCGA-83-5908     TCGA-86-6562     TCGA-86-6851 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7701     TCGA-86-7711     TCGA-86-7713     TCGA-86-7714 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7953     TCGA-86-7954     TCGA-86-7955     TCGA-86-8054 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8055     TCGA-86-8056     TCGA-86-8073     TCGA-86-8074 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8075     TCGA-86-8076     TCGA-86-8278     TCGA-86-8279 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8280     TCGA-86-8281     TCGA-86-8358     TCGA-86-8359 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8585     TCGA-86-8668     TCGA-86-8669     TCGA-86-8671 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8672     TCGA-86-8673     TCGA-86-8674     TCGA-86-A456 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6829     TCGA-91-6830     TCGA-91-6831     TCGA-91-6835 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6836     TCGA-91-6840     TCGA-91-6847     TCGA-91-6848 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6849     TCGA-91-7771     TCGA-91-8496     TCGA-91-8497 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7347 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043     TCGA-95-7562 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7944     TCGA-95-7947     TCGA-95-7948 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547     TCGA-97-7552 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7941     TCGA-97-8171     TCGA-97-8172     TCGA-97-8174 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8175     TCGA-97-8176     TCGA-97-8177     TCGA-97-8179 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-99-8028     TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A55R     TCGA-O1-A52J 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      2      0
  NRAS WILD-TYPE     94    231     85
D91V12, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            410 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-6178 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643     TCGA-44-5644 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-5645     TCGA-44-6144     TCGA-44-6145     TCGA-44-6146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6148     TCGA-44-6774     TCGA-44-6775 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6778     TCGA-44-6779 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7660     TCGA-44-7661     TCGA-44-7662 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7667     TCGA-44-7669     TCGA-44-7670     TCGA-44-7671 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7672     TCGA-44-8117     TCGA-44-8119     TCGA-44-8120 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F     TCGA-44-A47G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487     TCGA-49-4488 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4490     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6743     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5045     TCGA-50-5049 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5051     TCGA-50-5055     TCGA-50-5066     TCGA-50-5068 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5930     TCGA-50-5931     TCGA-50-5932 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5935     TCGA-50-5936     TCGA-50-5939 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5941     TCGA-50-5942     TCGA-50-5944     TCGA-50-5946 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-6590     TCGA-50-6591     TCGA-50-6592     TCGA-50-6593 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-6594     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-7109     TCGA-50-8457     TCGA-50-8459     TCGA-50-8460 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-53-7624     TCGA-53-7626     TCGA-53-7813     TCGA-53-A4EZ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-5899     TCGA-55-6543     TCGA-55-6642     TCGA-55-6712 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6968     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6972     TCGA-55-6978     TCGA-55-6979     TCGA-55-6980 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-6983     TCGA-55-6984 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6985     TCGA-55-6986     TCGA-55-6987     TCGA-55-7227 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7281     TCGA-55-7283     TCGA-55-7284     TCGA-55-7570 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7576     TCGA-55-7724 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7726     TCGA-55-7727     TCGA-55-7728     TCGA-55-7815 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7816     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8085     TCGA-55-8087     TCGA-55-8089     TCGA-55-8090 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8091     TCGA-55-8092     TCGA-55-8094     TCGA-55-8096 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8203     TCGA-55-8204     TCGA-55-8205     TCGA-55-8206 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8208     TCGA-55-8299     TCGA-55-8301     TCGA-55-8302 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8505     TCGA-55-8506     TCGA-55-8507     TCGA-55-8508 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8510     TCGA-55-8511     TCGA-55-8512     TCGA-55-8513 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8514     TCGA-55-8614     TCGA-55-8615     TCGA-55-8616 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8619     TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A492     TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395     TCGA-62-8397 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-8398     TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A472     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5775     TCGA-64-5778     TCGA-64-5779     TCGA-64-5781 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5815     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7765     TCGA-69-7973     TCGA-69-7974 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7978     TCGA-69-7980     TCGA-69-8253     TCGA-69-8254 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725     TCGA-71-8520 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-5122     TCGA-75-5125     TCGA-75-5126     TCGA-75-5146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-5147     TCGA-75-6203     TCGA-75-6205     TCGA-75-6206 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-7025     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7146     TCGA-78-7147 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7148     TCGA-78-7149     TCGA-78-7150     TCGA-78-7152 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7159 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7163     TCGA-78-7166 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7220     TCGA-78-7535     TCGA-78-7536 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7633     TCGA-78-8640     TCGA-78-8648     TCGA-78-8655 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-8660     TCGA-78-8662     TCGA-80-5607     TCGA-80-5608 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-80-5611     TCGA-83-5908     TCGA-86-6562     TCGA-86-6851 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7701     TCGA-86-7711     TCGA-86-7713     TCGA-86-7714 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7953     TCGA-86-7954     TCGA-86-7955     TCGA-86-8054 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8055     TCGA-86-8056     TCGA-86-8073     TCGA-86-8074 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8075     TCGA-86-8076     TCGA-86-8278     TCGA-86-8279 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8280     TCGA-86-8281     TCGA-86-8358     TCGA-86-8359 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8585     TCGA-86-8668     TCGA-86-8669     TCGA-86-8671 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8672     TCGA-86-8673     TCGA-86-8674     TCGA-86-A456 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6829     TCGA-91-6830     TCGA-91-6831     TCGA-91-6835 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6836     TCGA-91-6840     TCGA-91-6847     TCGA-91-6848 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-6849     TCGA-91-7771     TCGA-91-8496     TCGA-91-8497 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7347 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043     TCGA-95-7562 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7944     TCGA-95-7947     TCGA-95-7948 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547     TCGA-97-7552 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7941     TCGA-97-8171     TCGA-97-8172     TCGA-97-8174 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8175     TCGA-97-8176     TCGA-97-8177     TCGA-97-8179 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-99-8028     TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A55R     TCGA-O1-A52J 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" 

Clustering(92) Variable = HCLS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HCLS1 MUTATED        0      0      0      0
  HCLS1 WILD-TYPE      5      7      5      3
D92V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        0      0      0
  HCLS1 WILD-TYPE      7      9      4
D92V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HCLS1 MUTATED        2      6      5      3
  HCLS1 WILD-TYPE     63    204     67    128
D92V3, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             6             204
  CLUS_3             5              67
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        5      7      3
  HCLS1 WILD-TYPE    126    131    158
D92V4, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             5             126
  CLUS_2             7             131
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        1      3      3
  HCLS1 WILD-TYPE     41     68     60
D92V5, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             3              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
  HCLS1 MUTATED        2      0      1      3      1
  HCLS1 WILD-TYPE     37     32     42     27     31
D92V6, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             3              27
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        4      6      6
  HCLS1 WILD-TYPE    146    179    137
D92V7, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             6             179
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HCLS1 MUTATED        3      5      2      1      0      4      1
  HCLS1 WILD-TYPE     69    104     88     43     49     42     67
D92V8, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             5             104
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             4              42
  CLUS_7             1              67
[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
  HCLS1 MUTATED        7      7      2
  HCLS1 WILD-TYPE    168    204     88
D92V9, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             7             168
  CLUS_2             7             204
  CLUS_3             2              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
  HCLS1 MUTATED        3      4      4      5
  HCLS1 WILD-TYPE     67    182    127     84
D92V10, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             4             182
  CLUS_3             4             127
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HCLS1 MUTATED        6      5      4
  HCLS1 WILD-TYPE    135    177     85
D92V11, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             6             135
  CLUS_2             5             177
  CLUS_3             4              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
  HCLS1 MUTATED        4      9      2
  HCLS1 WILD-TYPE     90    224     83
D92V12, multiclass
        clus
vv       HCLS1 MUTATED HCLS1 WILD-TYPE
  CLUS_1             4              90
  CLUS_2             9             224
  CLUS_3             2              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"

Clustering(93) Variable = KIAA0895L MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0895L MUTATED        0      0      0      0
  KIAA0895L WILD-TYPE      5      7      5      3
D93V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0895L MUTATED        0      0      0
  KIAA0895L WILD-TYPE      7      9      4
D93V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA0895L MUTATED        1      0      2      1
  KIAA0895L WILD-TYPE     64    210     70    130
D93V3, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 1                  64
  CLUS_2                 0                 210
  CLUS_3                 2                  70
  CLUS_4                 1                 130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0895L MUTATED        0      2      2
  KIAA0895L WILD-TYPE    131    136    159
D93V4, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                 131
  CLUS_2                 2                 136
  CLUS_3                 2                 159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0895L MUTATED        0      0      0
  KIAA0895L WILD-TYPE     42     71     63
D93V5, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA0895L MUTATED        0      0      0      0      0
  KIAA0895L WILD-TYPE     39     32     43     30     32
D93V6, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0895L MUTATED        0      1      3
  KIAA0895L WILD-TYPE    150    184    140
D93V7, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                 150
  CLUS_2                 1                 184
  CLUS_3                 3                 140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KIAA0895L MUTATED        0      0      1      0      2      1      0
  KIAA0895L WILD-TYPE     72    109     89     44     47     45     68
D93V8, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                  72
  CLUS_2                 0                 109
  CLUS_3                 1                  89
  CLUS_4                 0                  44
  CLUS_5                 2                  47
  CLUS_6                 1                  45
  CLUS_7                 0                  68
[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
  KIAA0895L MUTATED        0      4      0
  KIAA0895L WILD-TYPE    175    207     90
D93V9, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                 175
  CLUS_2                 4                 207
  CLUS_3                 0                  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
  KIAA0895L MUTATED        0      3      0      1
  KIAA0895L WILD-TYPE     70    183    131     88
D93V10, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 3                 183
  CLUS_3                 0                 131
  CLUS_4                 1                  88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  KIAA0895L MUTATED        0      4      0
  KIAA0895L WILD-TYPE    141    178     89
D93V11, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                 141
  CLUS_2                 4                 178
  CLUS_3                 0                  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
  KIAA0895L MUTATED        0      3      1
  KIAA0895L WILD-TYPE     94    230     84
D93V12, multiclass
        clus
vv       KIAA0895L MUTATED KIAA0895L WILD-TYPE
  CLUS_1                 0                  94
  CLUS_2                 3                 230
  CLUS_3                 1                  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"

Clustering(94) Variable = BMP2K MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMP2K MUTATED        0      0      0      0
  BMP2K WILD-TYPE      5      7      5      3
D94V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMP2K MUTATED        0      0      0
  BMP2K WILD-TYPE      7      9      4
D94V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BMP2K MUTATED        1      4      2      6
  BMP2K WILD-TYPE     64    206     70    125
D94V3, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              64
  CLUS_2             4             206
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      5      4
  BMP2K WILD-TYPE    128    133    157
D94V4, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             3             128
  CLUS_2             5             133
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        0      3      1
  BMP2K WILD-TYPE     42     68     62
D94V5, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3              68
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BMP2K MUTATED        2      0      1      1      0
  BMP2K WILD-TYPE     37     32     42     29     32
D94V6, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BMP2K MUTATED        2     10      1
  BMP2K WILD-TYPE    148    175    142
D94V7, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             2             148
  CLUS_2            10             175
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BMP2K MUTATED        1      4      7      0      0      1      0
  BMP2K WILD-TYPE     71    105     83     44     49     45     68
D94V8, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             7              83
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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        4      9      0
  BMP2K WILD-TYPE    171    202     90
D94V9, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             4             171
  CLUS_2             9             202
  CLUS_3             0              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
  BMP2K MUTATED        1      6      2      4
  BMP2K WILD-TYPE     69    180    129     85
D94V10, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             180
  CLUS_3             2             129
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      8      2
  BMP2K WILD-TYPE    139    174     87
D94V11, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             2             139
  CLUS_2             8             174
  CLUS_3             2              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
  BMP2K MUTATED        2      9      1
  BMP2K WILD-TYPE     92    224     84
D94V12, multiclass
        clus
vv       BMP2K MUTATED BMP2K WILD-TYPE
  CLUS_1             2              92
  CLUS_2             9             224
  CLUS_3             1              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"

Clustering(95) Variable = DOT1L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOT1L MUTATED        0      0      0      0
  DOT1L WILD-TYPE      5      7      5      3
D95V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        0      0      0
  DOT1L WILD-TYPE      7      9      4
D95V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOT1L MUTATED        1      5      2      6
  DOT1L WILD-TYPE     64    205     70    125
D95V3, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        3      3      7
  DOT1L WILD-TYPE    128    135    154
D95V4, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        3      3      1
  DOT1L WILD-TYPE     39     68     62
D95V5, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             3              39
  CLUS_2             3              68
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOT1L MUTATED        1      3      1      2      0
  DOT1L WILD-TYPE     38     29     42     28     32
D95V6, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             1              38
  CLUS_2             3              29
  CLUS_3             1              42
  CLUS_4             2              28
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        3      6      5
  DOT1L WILD-TYPE    147    179    138
D95V7, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             3             147
  CLUS_2             6             179
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DOT1L MUTATED        0      4      0      4      0      3      3
  DOT1L WILD-TYPE     72    105     90     40     49     43     65
D95V8, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             0              90
  CLUS_4             4              40
  CLUS_5             0              49
  CLUS_6             3              43
  CLUS_7             3              65
[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
  DOT1L MUTATED        6      5      3
  DOT1L WILD-TYPE    169    206     87
D95V9, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             6             169
  CLUS_2             5             206
  CLUS_3             3              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
  DOT1L MUTATED        4      8      1      1
  DOT1L WILD-TYPE     66    178    130     88
D95V10, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             4              66
  CLUS_2             8             178
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        6      4      3
  DOT1L WILD-TYPE    135    178     86
D95V11, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             6             135
  CLUS_2             4             178
  CLUS_3             3              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
  DOT1L MUTATED        5      7      1
  DOT1L WILD-TYPE     89    226     84
D95V12, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             5              89
  CLUS_2             7             226
  CLUS_3             1              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"

Clustering(96) Variable = SND1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SND1 MUTATED        0      2      0      0
  SND1 WILD-TYPE      5      5      5      3
D96V1, multiclass
[1] "Remove cluster labels:" "SND1 MUTATED"          
clus
  SND1 MUTATED SND1 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1677     TCGA-67-3771 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SND1 MUTATED        0      2      0
  SND1 WILD-TYPE      7      7      4
D96V2, multiclass
[1] "Remove cluster labels:" "SND1 MUTATED"          
clus
  SND1 MUTATED SND1 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1677     TCGA-67-3771 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" "SND1 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"SND1 WILD-TYPE" "SND1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SND1 MUTATED        2      3      2      9
  SND1 WILD-TYPE     63    207     70    122
D96V3, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3            207
  CLUS_3            2             70
  CLUS_4            9            122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SND1 MUTATED        1      8      6
  SND1 WILD-TYPE    130    130    155
D96V4, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            8            130
  CLUS_3            6            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SND1 MUTATED        1      1      4
  SND1 WILD-TYPE     41     70     59
D96V5, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            4             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 CLUS_4 CLUS_5
  SND1 MUTATED        1      0      3      2      0
  SND1 WILD-TYPE     38     32     40     28     32
D96V6, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            3             40
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SND1 MUTATED        1      8      7
  SND1 WILD-TYPE    149    177    136
D96V7, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            8            177
  CLUS_3            7            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SND1 MUTATED        0      4      7      0      3      2      0
  SND1 WILD-TYPE     72    105     83     44     46     44     68
D96V8, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            4            105
  CLUS_3            7             83
  CLUS_4            0             44
  CLUS_5            3             46
  CLUS_6            2             44
  CLUS_7            0             68
[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
  SND1 MUTATED        2     12      2
  SND1 WILD-TYPE    173    199     88
D96V9, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            2            173
  CLUS_2           12            199
  CLUS_3            2             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
  SND1 MUTATED        1     10      1      4
  SND1 WILD-TYPE     69    176    130     85
D96V10, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2           10            176
  CLUS_3            1            130
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SND1 MUTATED        4      9      1
  SND1 WILD-TYPE    137    173     88
D96V11, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            9            173
  CLUS_3            1             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
  SND1 MUTATED        0     13      1
  SND1 WILD-TYPE     94    220     84
D96V12, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2           13            220
  CLUS_3            1             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"

Clustering(97) Variable = VGLL3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VGLL3 MUTATED        0      0      1      0
  VGLL3 WILD-TYPE      5      7      4      3
D97V1, multiclass
[1] "Remove cluster labels:" "VGLL3 MUTATED"         
clus
  VGLL3 MUTATED VGLL3 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VGLL3 MUTATED        1      0      0
  VGLL3 WILD-TYPE      6      9      4
D97V2, multiclass
[1] "Remove cluster labels:" "VGLL3 MUTATED"         
clus
  VGLL3 MUTATED VGLL3 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" "VGLL3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VGLL3 MUTATED        3      5      3      6
  VGLL3 WILD-TYPE     62    205     69    125
D97V3, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             5             205
  CLUS_3             3              69
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VGLL3 MUTATED        4      8      4
  VGLL3 WILD-TYPE    127    130    157
D97V4, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             8             130
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VGLL3 MUTATED        0      1      2
  VGLL3 WILD-TYPE     42     70     61
D97V5, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             2              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
  VGLL3 MUTATED        0      0      2      1      0
  VGLL3 WILD-TYPE     39     32     41     29     32
D97V6, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VGLL3 MUTATED        3      8      6
  VGLL3 WILD-TYPE    147    177    137
D97V7, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             8             177
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  VGLL3 MUTATED        1      5      5      1      2      2      1
  VGLL3 WILD-TYPE     71    104     85     43     47     44     67
D97V8, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             5              85
  CLUS_4             1              43
  CLUS_5             2              47
  CLUS_6             2              44
  CLUS_7             1              67
[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
  VGLL3 MUTATED        5     11      1
  VGLL3 WILD-TYPE    170    200     89
D97V9, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             5             170
  CLUS_2            11             200
  CLUS_3             1              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
  VGLL3 MUTATED        3      7      2      5
  VGLL3 WILD-TYPE     67    179    129     84
D97V10, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             7             179
  CLUS_3             2             129
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  VGLL3 MUTATED        2     10      3
  VGLL3 WILD-TYPE    139    172     86
D97V11, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             2             139
  CLUS_2            10             172
  CLUS_3             3              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
  VGLL3 MUTATED        3     11      1
  VGLL3 WILD-TYPE     91    222     84
D97V12, multiclass
        clus
vv       VGLL3 MUTATED VGLL3 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            11             222
  CLUS_3             1              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"

Clustering(98) Variable = LUM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LUM MUTATED        0      0      0      0
  LUM WILD-TYPE      5      7      5      3
D98V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        0      0      0
  LUM WILD-TYPE      7      9      4
D98V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LUM MUTATED        2      3      2      8
  LUM WILD-TYPE     63    207     70    123
D98V3, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           2            63
  CLUS_2           3           207
  CLUS_3           2            70
  CLUS_4           8           123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        3      6      5
  LUM WILD-TYPE    128    132    156
D98V4, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           3           128
  CLUS_2           6           132
  CLUS_3           5           156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        1      1      3
  LUM WILD-TYPE     41     70     60
D98V5, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1            70
  CLUS_3           3            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
  LUM MUTATED        1      1      1      0      2
  LUM WILD-TYPE     38     31     42     30     30
D98V6, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            38
  CLUS_2           1            31
  CLUS_3           1            42
  CLUS_4           0            30
  CLUS_5           2            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        3      6      6
  LUM WILD-TYPE    147    179    137
D98V7, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           3           147
  CLUS_2           6           179
  CLUS_3           6           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LUM MUTATED        2      5      3      1      3      1      0
  LUM WILD-TYPE     70    104     87     43     46     45     68
D98V8, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           2            70
  CLUS_2           5           104
  CLUS_3           3            87
  CLUS_4           1            43
  CLUS_5           3            46
  CLUS_6           1            45
  CLUS_7           0            68
[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
  LUM MUTATED        4      8      2
  LUM WILD-TYPE    171    203     88
D98V9, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           4           171
  CLUS_2           8           203
  CLUS_3           2            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
  LUM MUTATED        1      8      2      3
  LUM WILD-TYPE     69    178    129     86
D98V10, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           1            69
  CLUS_2           8           178
  CLUS_3           2           129
  CLUS_4           3            86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LUM MUTATED        4      8      2
  LUM WILD-TYPE    137    174     87
D98V11, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           4           137
  CLUS_2           8           174
  CLUS_3           2            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
  LUM MUTATED        2      9      3
  LUM WILD-TYPE     92    224     82
D98V12, multiclass
        clus
vv       LUM MUTATED LUM WILD-TYPE
  CLUS_1           2            92
  CLUS_2           9           224
  CLUS_3           3            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"

Clustering(99) Variable = ATP1B4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP1B4 MUTATED        0      1      0      1
  ATP1B4 WILD-TYPE      5      6      5      2
D99V1, multiclass
[1] "Remove cluster labels:" "ATP1B4 MUTATED"        
clus
  ATP1B4 MUTATED ATP1B4 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP1B4 MUTATED        1      0      1
  ATP1B4 WILD-TYPE      6      9      3
D99V2, multiclass
[1] "Remove cluster labels:" "ATP1B4 MUTATED"        
clus
  ATP1B4 MUTATED ATP1B4 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"ATP1B4 WILD-TYPE" "ATP1B4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP1B4 MUTATED        1      5      0      3
  ATP1B4 WILD-TYPE     64    205     72    128
D99V3, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              5              205
  CLUS_3              0               72
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP1B4 MUTATED        6      1      1
  ATP1B4 WILD-TYPE    125    137    160
D99V4, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              6              125
  CLUS_2              1              137
  CLUS_3              1              160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP1B4 MUTATED        1      4      1
  ATP1B4 WILD-TYPE     41     67     62
D99V5, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              4               67
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP1B4 MUTATED        3      0      1      0      2
  ATP1B4 WILD-TYPE     36     32     42     30     30
D99V6, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP1B4 MUTATED        3      4      2
  ATP1B4 WILD-TYPE    147    181    141
D99V7, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              3              147
  CLUS_2              4              181
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ATP1B4 MUTATED        3      3      2      0      1      0      0
  ATP1B4 WILD-TYPE     69    106     88     44     48     46     68
D99V8, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              3               69
  CLUS_2              3              106
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              0               68
[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
  ATP1B4 MUTATED        2      6      1
  ATP1B4 WILD-TYPE    173    205     89
D99V9, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              6              205
  CLUS_3              1               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
  ATP1B4 MUTATED        2      3      2      2
  ATP1B4 WILD-TYPE     68    183    129     87
D99V10, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              183
  CLUS_3              2              129
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP1B4 MUTATED        4      2      1
  ATP1B4 WILD-TYPE    137    180     88
D99V11, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              2              180
  CLUS_3              1               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
  ATP1B4 MUTATED        1      3      3
  ATP1B4 WILD-TYPE     93    230     82
D99V12, multiclass
        clus
vv       ATP1B4 MUTATED ATP1B4 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              3              230
  CLUS_3              3               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"

Clustering(100) Variable = ATAD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD2 MUTATED        0      0      0      0
  ATAD2 WILD-TYPE      5      7      5      3
D100V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        0      0      0
  ATAD2 WILD-TYPE      7      9      4
D100V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD2 MUTATED        1      2      5      6
  ATAD2 WILD-TYPE     64    208     67    125
D100V3, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             5              67
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        0      6      7
  ATAD2 WILD-TYPE    131    132    154
D100V4, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             6             132
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        2      1      1
  ATAD2 WILD-TYPE     40     70     62
D100V5, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD2 MUTATED        0      1      2      0      1
  ATAD2 WILD-TYPE     39     31     41     30     31
D100V6, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        1      9      3
  ATAD2 WILD-TYPE    149    176    140
D100V7, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             9             176
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ATAD2 MUTATED        0      4      5      2      1      0      1
  ATAD2 WILD-TYPE     72    105     85     42     48     46     67
D100V8, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             5              85
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  ATAD2 MUTATED        3      7      4
  ATAD2 WILD-TYPE    172    204     86
D100V9, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             4              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
  ATAD2 MUTATED        2      6      0      6
  ATAD2 WILD-TYPE     68    180    131     83
D100V10, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             180
  CLUS_3             0             131
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        4      5      4
  ATAD2 WILD-TYPE    137    177     85
D100V11, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             5             177
  CLUS_3             4              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
  ATAD2 MUTATED        2     10      1
  ATAD2 WILD-TYPE     92    223     84
D100V12, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            10             223
  CLUS_3             1              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"

Clustering(101) Variable = SLC17A9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC17A9 MUTATED        0      1      0      0
  SLC17A9 WILD-TYPE      5      6      5      3
D101V1, multiclass
[1] "Remove cluster labels:" "SLC17A9 MUTATED"       
clus
  SLC17A9 MUTATED SLC17A9 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A9 MUTATED        1      0      0
  SLC17A9 WILD-TYPE      6      9      4
D101V2, multiclass
[1] "Remove cluster labels:" "SLC17A9 MUTATED"       
clus
  SLC17A9 MUTATED SLC17A9 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" "SLC17A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC17A9 MUTATED        1      4      1      2
  SLC17A9 WILD-TYPE     64    206     71    129
D101V3, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               4               206
  CLUS_3               1                71
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A9 MUTATED        2      2      4
  SLC17A9 WILD-TYPE    129    136    157
D101V4, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               2               136
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A9 MUTATED        0      2      1
  SLC17A9 WILD-TYPE     42     69     62
D101V5, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2                69
  CLUS_3               1                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC17A9 MUTATED        2      0      1      0      0
  SLC17A9 WILD-TYPE     37     32     42     30     32
D101V6, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               2                37
  CLUS_2               0                32
  CLUS_3               1                42
  CLUS_4               0                30
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A9 MUTATED        1      4      3
  SLC17A9 WILD-TYPE    149    181    140
D101V7, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               4               181
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC17A9 MUTATED        1      2      2      1      0      0      2
  SLC17A9 WILD-TYPE     71    107     88     43     49     46     66
D101V8, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               2               107
  CLUS_3               2                88
  CLUS_4               1                43
  CLUS_5               0                49
  CLUS_6               0                46
  CLUS_7               2                66
[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
  SLC17A9 MUTATED        2      6      0
  SLC17A9 WILD-TYPE    173    205     90
D101V9, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               2               173
  CLUS_2               6               205
  CLUS_3               0                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
  SLC17A9 MUTATED        2      3      1      2
  SLC17A9 WILD-TYPE     68    183    130     87
D101V10, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               3               183
  CLUS_3               1               130
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A9 MUTATED        2      4      1
  SLC17A9 WILD-TYPE    139    178     88
D101V11, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               4               178
  CLUS_3               1                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
  SLC17A9 MUTATED        2      4      1
  SLC17A9 WILD-TYPE     92    229     84
D101V12, multiclass
        clus
vv       SLC17A9 MUTATED SLC17A9 WILD-TYPE
  CLUS_1               2                92
  CLUS_2               4               229
  CLUS_3               1                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"

Clustering(102) Variable = ZNF592 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF592 MUTATED        0      1      0      0
  ZNF592 WILD-TYPE      5      6      5      3
D102V1, multiclass
[1] "Remove cluster labels:" "ZNF592 MUTATED"        
clus
  ZNF592 MUTATED ZNF592 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF592 MUTATED        1      0      0
  ZNF592 WILD-TYPE      6      9      4
D102V2, multiclass
[1] "Remove cluster labels:" "ZNF592 MUTATED"        
clus
  ZNF592 MUTATED ZNF592 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" "ZNF592 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF592 MUTATED        1      6      2      7
  ZNF592 WILD-TYPE     64    204     70    124
D102V3, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              6              204
  CLUS_3              2               70
  CLUS_4              7              124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF592 MUTATED        3      8      4
  ZNF592 WILD-TYPE    128    130    157
D102V4, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              8              130
  CLUS_3              4              157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF592 MUTATED        3      2      2
  ZNF592 WILD-TYPE     39     69     61
D102V5, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2               69
  CLUS_3              2               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
  ZNF592 MUTATED        1      3      2      0      1
  ZNF592 WILD-TYPE     38     29     41     30     31
D102V6, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              3               29
  CLUS_3              2               41
  CLUS_4              0               30
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF592 MUTATED        2      9      5
  ZNF592 WILD-TYPE    148    176    138
D102V7, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              9              176
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF592 MUTATED        1      6      6      1      2      0      0
  ZNF592 WILD-TYPE     71    103     84     43     47     46     68
D102V8, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              6              103
  CLUS_3              6               84
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              0               46
  CLUS_7              0               68
[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
  ZNF592 MUTATED        2     10      4
  ZNF592 WILD-TYPE    173    201     86
D102V9, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              2              173
  CLUS_2             10              201
  CLUS_3              4               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
  ZNF592 MUTATED        3      6      0      7
  ZNF592 WILD-TYPE     67    180    131     82
D102V10, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              6              180
  CLUS_3              0              131
  CLUS_4              7               82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF592 MUTATED        3      8      3
  ZNF592 WILD-TYPE    138    174     86
D102V11, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              3              138
  CLUS_2              8              174
  CLUS_3              3               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
  ZNF592 MUTATED        2     10      2
  ZNF592 WILD-TYPE     92    223     83
D102V12, multiclass
        clus
vv       ZNF592 MUTATED ZNF592 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             10              223
  CLUS_3              2               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"

Clustering(103) Variable = ZNF556 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF556 MUTATED        0      0      0      0
  ZNF556 WILD-TYPE      5      7      5      3
D103V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        0      0      0
  ZNF556 WILD-TYPE      7      9      4
D103V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF556 MUTATED        3      3      1      5
  ZNF556 WILD-TYPE     62    207     71    126
D103V3, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3              207
  CLUS_3              1               71
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        2      5      4
  ZNF556 WILD-TYPE    129    133    157
D103V4, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              5              133
  CLUS_3              4              157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        0      3      0
  ZNF556 WILD-TYPE     42     68     63
D103V5, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              0               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 CLUS_4 CLUS_5
  ZNF556 MUTATED        1      0      2      0      0
  ZNF556 WILD-TYPE     38     32     41     30     32
D103V6, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        2      8      2
  ZNF556 WILD-TYPE    148    177    141
D103V7, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              8              177
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF556 MUTATED        0      3      6      1      0      1      1
  ZNF556 WILD-TYPE     72    106     84     43     49     45     67
D103V8, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              6               84
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              1               67
[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
  ZNF556 MUTATED        2      6      4
  ZNF556 WILD-TYPE    173    205     86
D103V9, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              6              205
  CLUS_3              4               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
  ZNF556 MUTATED        1      5      2      4
  ZNF556 WILD-TYPE     69    181    129     85
D103V10, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              181
  CLUS_3              2              129
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        3      6      2
  ZNF556 WILD-TYPE    138    176     87
D103V11, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              3              138
  CLUS_2              6              176
  CLUS_3              2               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
  ZNF556 MUTATED        0     10      1
  ZNF556 WILD-TYPE     94    223     84
D103V12, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              0               94
  CLUS_2             10              223
  CLUS_3              1               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"

Clustering(104) Variable = ZEB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZEB1 MUTATED        1      2      0      1
  ZEB1 WILD-TYPE      4      5      5      2
D104V1, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            1              4
  CLUS_2            2              5
  CLUS_3            0              5
  CLUS_4            1              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZEB1 MUTATED        1      2      1
  ZEB1 WILD-TYPE      6      7      3
D104V2, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            2              7
  CLUS_3            1              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZEB1 MUTATED        6     12      6      8
  ZEB1 WILD-TYPE     59    198     66    123
D104V3, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            6             59
  CLUS_2           12            198
  CLUS_3            6             66
  CLUS_4            8            123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZEB1 MUTATED        7     11     10
  ZEB1 WILD-TYPE    124    127    151
D104V4, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            7            124
  CLUS_2           11            127
  CLUS_3           10            151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZEB1 MUTATED        4      3      3
  ZEB1 WILD-TYPE     38     68     60
D104V5, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            4             38
  CLUS_2            3             68
  CLUS_3            3             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
  ZEB1 MUTATED        2      3      1      3      1
  ZEB1 WILD-TYPE     37     29     42     27     31
D104V6, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            3             29
  CLUS_3            1             42
  CLUS_4            3             27
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZEB1 MUTATED        7     15      9
  ZEB1 WILD-TYPE    143    170    134
D104V7, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            7            143
  CLUS_2           15            170
  CLUS_3            9            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZEB1 MUTATED        4      9      8      2      3      0      5
  ZEB1 WILD-TYPE     68    100     82     42     46     46     63
D104V8, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            4             68
  CLUS_2            9            100
  CLUS_3            8             82
  CLUS_4            2             42
  CLUS_5            3             46
  CLUS_6            0             46
  CLUS_7            5             63
[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
  ZEB1 MUTATED        9     17      5
  ZEB1 WILD-TYPE    166    194     85
D104V9, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            9            166
  CLUS_2           17            194
  CLUS_3            5             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
  ZEB1 MUTATED        3      8      8     12
  ZEB1 WILD-TYPE     67    178    123     77
D104V10, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            8            178
  CLUS_3            8            123
  CLUS_4           12             77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZEB1 MUTATED        8     12      5
  ZEB1 WILD-TYPE    133    170     84
D104V11, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            8            133
  CLUS_2           12            170
  CLUS_3            5             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
  ZEB1 MUTATED        5     13      7
  ZEB1 WILD-TYPE     89    220     78
D104V12, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            5             89
  CLUS_2           13            220
  CLUS_3            7             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"

Clustering(105) Variable = SLC22A6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC22A6 MUTATED        1      2      0      1
  SLC22A6 WILD-TYPE      4      5      5      2
D105V1, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               2                 5
  CLUS_3               0                 5
  CLUS_4               1                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A6 MUTATED        1      2      1
  SLC22A6 WILD-TYPE      6      7      3
D105V2, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               2                 7
  CLUS_3               1                 3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC22A6 MUTATED        2      6      1      5
  SLC22A6 WILD-TYPE     63    204     71    126
D105V3, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               6               204
  CLUS_3               1                71
  CLUS_4               5               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A6 MUTATED        3      1      6
  SLC22A6 WILD-TYPE    128    137    155
D105V4, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               3               128
  CLUS_2               1               137
  CLUS_3               6               155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A6 MUTATED        0      3      2
  SLC22A6 WILD-TYPE     42     68     61
D105V5, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3                68
  CLUS_3               2                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
  SLC22A6 MUTATED        2      1      2      0      0
  SLC22A6 WILD-TYPE     37     31     41     30     32
D105V6, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               2                37
  CLUS_2               1                31
  CLUS_3               2                41
  CLUS_4               0                30
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A6 MUTATED        3      9      2
  SLC22A6 WILD-TYPE    147    176    141
D105V7, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               3               147
  CLUS_2               9               176
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC22A6 MUTATED        1      7      5      0      0      1      0
  SLC22A6 WILD-TYPE     71    102     85     44     49     45     68
D105V8, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               7               102
  CLUS_3               5                85
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               0                68
[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
  SLC22A6 MUTATED        2      7      5
  SLC22A6 WILD-TYPE    173    204     85
D105V9, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               2               173
  CLUS_2               7               204
  CLUS_3               5                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
  SLC22A6 MUTATED        2      6      2      4
  SLC22A6 WILD-TYPE     68    180    129     85
D105V10, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               6               180
  CLUS_3               2               129
  CLUS_4               4                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC22A6 MUTATED        2      3      4
  SLC22A6 WILD-TYPE    139    179     85
D105V11, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               3               179
  CLUS_3               4                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
  SLC22A6 MUTATED        2      6      1
  SLC22A6 WILD-TYPE     92    227     84
D105V12, multiclass
        clus
vv       SLC22A6 MUTATED SLC22A6 WILD-TYPE
  CLUS_1               2                92
  CLUS_2               6               227
  CLUS_3               1                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"

Clustering(106) Variable = RABEPK MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RABEPK MUTATED        0      0      0      0
  RABEPK WILD-TYPE      5      7      5      3
D106V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RABEPK MUTATED        0      0      0
  RABEPK WILD-TYPE      7      9      4
D106V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RABEPK MUTATED        1      2      1      2
  RABEPK WILD-TYPE     64    208     71    129
D106V3, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RABEPK MUTATED        2      1      3
  RABEPK WILD-TYPE    129    137    158
D106V4, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              2              129
  CLUS_2              1              137
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RABEPK MUTATED        0      3      0
  RABEPK WILD-TYPE     42     68     63
D106V5, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              0               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 CLUS_4 CLUS_5
  RABEPK MUTATED        2      0      1      0      0
  RABEPK WILD-TYPE     37     32     42     30     32
D106V6, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              2               37
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RABEPK MUTATED        1      3      2
  RABEPK WILD-TYPE    149    182    141
D106V7, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              1              149
  CLUS_2              3              182
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RABEPK MUTATED        0      3      0      0      1      1      1
  RABEPK WILD-TYPE     72    106     90     44     48     45     67
D106V8, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              0               90
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              1               45
  CLUS_7              1               67
[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
  RABEPK MUTATED        2      3      1
  RABEPK WILD-TYPE    173    208     89
D106V9, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              2              173
  CLUS_2              3              208
  CLUS_3              1               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
  RABEPK MUTATED        1      3      1      1
  RABEPK WILD-TYPE     69    183    130     88
D106V10, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              183
  CLUS_3              1              130
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RABEPK MUTATED        2      2      2
  RABEPK WILD-TYPE    139    180     87
D106V11, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              2              139
  CLUS_2              2              180
  CLUS_3              2               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
  RABEPK MUTATED        0      4      2
  RABEPK WILD-TYPE     94    229     83
D106V12, multiclass
        clus
vv       RABEPK MUTATED RABEPK WILD-TYPE
  CLUS_1              0               94
  CLUS_2              4              229
  CLUS_3              2               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"

Clustering(107) Variable = CHGB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHGB MUTATED        0      1      0      0
  CHGB WILD-TYPE      5      6      5      3
D107V1, multiclass
[1] "Remove cluster labels:" "CHGB MUTATED"          
clus
  CHGB MUTATED CHGB WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        0      1      0
  CHGB WILD-TYPE      7      8      4
D107V2, multiclass
[1] "Remove cluster labels:" "CHGB MUTATED"          
clus
  CHGB MUTATED CHGB WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"CHGB WILD-TYPE" "CHGB WILD-TYPE" "CHGB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHGB MUTATED        2      8      2      2
  CHGB WILD-TYPE     63    202     70    129
D107V3, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            2             63
  CLUS_2            8            202
  CLUS_3            2             70
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        3      3      6
  CHGB WILD-TYPE    128    135    155
D107V4, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            3            128
  CLUS_2            3            135
  CLUS_3            6            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        1      1      2
  CHGB WILD-TYPE     41     70     61
D107V5, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            2             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
  CHGB MUTATED        1      0      0      1      2
  CHGB WILD-TYPE     38     32     43     29     30
D107V6, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            0             43
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        1      9      4
  CHGB WILD-TYPE    149    176    139
D107V7, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            1            149
  CLUS_2            9            176
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CHGB MUTATED        0      8      3      0      1      1      1
  CHGB WILD-TYPE     72    101     87     44     48     45     67
D107V8, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            0             72
  CLUS_2            8            101
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            1             67
[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
  CHGB MUTATED        2     11      1
  CHGB WILD-TYPE    173    200     89
D107V9, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            2            173
  CLUS_2           11            200
  CLUS_3            1             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
  CHGB MUTATED        2      8      1      3
  CHGB WILD-TYPE     68    178    130     86
D107V10, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            2             68
  CLUS_2            8            178
  CLUS_3            1            130
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHGB MUTATED        2      6      3
  CHGB WILD-TYPE    139    176     86
D107V11, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            2            139
  CLUS_2            6            176
  CLUS_3            3             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
  CHGB MUTATED        2      8      1
  CHGB WILD-TYPE     92    225     84
D107V12, multiclass
        clus
vv       CHGB MUTATED CHGB WILD-TYPE
  CLUS_1            2             92
  CLUS_2            8            225
  CLUS_3            1             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"

Clustering(108) Variable = ESYT3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESYT3 MUTATED        0      0      0      0
  ESYT3 WILD-TYPE      5      7      5      3
D108V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        0      0      0
  ESYT3 WILD-TYPE      7      9      4
D108V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESYT3 MUTATED        0      5      1      2
  ESYT3 WILD-TYPE     65    205     71    129
D108V3, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             5             205
  CLUS_3             1              71
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        4      1      2
  ESYT3 WILD-TYPE    127    137    159
D108V4, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             1             137
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        1      0      0
  ESYT3 WILD-TYPE     41     71     63
D108V5, multiclass
[1] "Remove cluster labels:" "ESYT3 MUTATED"         
clus
  ESYT3 MUTATED ESYT3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESYT3 MUTATED        0      0      0      0      1
  ESYT3 WILD-TYPE     39     32     43     30     31
D108V6, multiclass
[1] "Remove cluster labels:" "ESYT3 MUTATED"         
clus
  ESYT3 MUTATED ESYT3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" "ESYT3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        2      5      1
  ESYT3 WILD-TYPE    148    180    142
D108V7, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             5             180
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ESYT3 MUTATED        1      3      1      1      0      2      0
  ESYT3 WILD-TYPE     71    106     89     43     49     44     68
D108V8, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             3             106
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             2              44
  CLUS_7             0              68
[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
  ESYT3 MUTATED        3      5      0
  ESYT3 WILD-TYPE    172    206     90
D108V9, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             5             206
  CLUS_3             0              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
  ESYT3 MUTATED        0      5      3      0
  ESYT3 WILD-TYPE     70    181    128     89
D108V10, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             181
  CLUS_3             3             128
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        2      5      0
  ESYT3 WILD-TYPE    139    177     89
D108V11, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             5             177
  CLUS_3             0              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
  ESYT3 MUTATED        0      5      2
  ESYT3 WILD-TYPE     94    228     83
D108V12, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             2              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"

Clustering(109) Variable = L1CAM MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  L1CAM MUTATED        0      1      1      1
  L1CAM WILD-TYPE      5      6      4      2
D109V1, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             0               5
  CLUS_2             1               6
  CLUS_3             1               4
  CLUS_4             1               2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1CAM MUTATED        1      1      1
  L1CAM WILD-TYPE      6      8      3
D109V2, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             1               6
  CLUS_2             1               8
  CLUS_3             1               3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  L1CAM MUTATED        3     17      2     12
  L1CAM WILD-TYPE     62    193     70    119
D109V3, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             3              62
  CLUS_2            17             193
  CLUS_3             2              70
  CLUS_4            12             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1CAM MUTATED       11      9     13
  L1CAM WILD-TYPE    120    129    148
D109V4, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1            11             120
  CLUS_2             9             129
  CLUS_3            13             148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1CAM MUTATED        3      8      3
  L1CAM WILD-TYPE     39     63     60
D109V5, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             3              39
  CLUS_2             8              63
  CLUS_3             3              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
  L1CAM MUTATED        6      2      2      2      2
  L1CAM WILD-TYPE     33     30     41     28     30
D109V6, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             6              33
  CLUS_2             2              30
  CLUS_3             2              41
  CLUS_4             2              28
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1CAM MUTATED        9     16      9
  L1CAM WILD-TYPE    141    169    134
D109V7, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             9             141
  CLUS_2            16             169
  CLUS_3             9             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  L1CAM MUTATED        4     12      5      3      2      4      4
  L1CAM WILD-TYPE     68     97     85     41     47     42     64
D109V8, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             4              68
  CLUS_2            12              97
  CLUS_3             5              85
  CLUS_4             3              41
  CLUS_5             2              47
  CLUS_6             4              42
  CLUS_7             4              64
[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
  L1CAM MUTATED       15     15      4
  L1CAM WILD-TYPE    160    196     86
D109V9, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1            15             160
  CLUS_2            15             196
  CLUS_3             4              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
  L1CAM MUTATED        8     11      8      7
  L1CAM WILD-TYPE     62    175    123     82
D109V10, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             8              62
  CLUS_2            11             175
  CLUS_3             8             123
  CLUS_4             7              82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  L1CAM MUTATED       16     10      5
  L1CAM WILD-TYPE    125    172     84
D109V11, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1            16             125
  CLUS_2            10             172
  CLUS_3             5              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
  L1CAM MUTATED        6     18      7
  L1CAM WILD-TYPE     88    215     78
D109V12, multiclass
        clus
vv       L1CAM MUTATED L1CAM WILD-TYPE
  CLUS_1             6              88
  CLUS_2            18             215
  CLUS_3             7              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"

Clustering(110) Variable = SLC17A3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC17A3 MUTATED        0      0      0      0
  SLC17A3 WILD-TYPE      5      7      5      3
D110V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A3 MUTATED        0      0      0
  SLC17A3 WILD-TYPE      7      9      4
D110V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC17A3 MUTATED        1      4      4      6
  SLC17A3 WILD-TYPE     64    206     68    125
D110V3, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               4               206
  CLUS_3               4                68
  CLUS_4               6               125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A3 MUTATED        3      8      3
  SLC17A3 WILD-TYPE    128    130    158
D110V4, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               3               128
  CLUS_2               8               130
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A3 MUTATED        0      2      4
  SLC17A3 WILD-TYPE     42     69     59
D110V5, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2                69
  CLUS_3               4                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 CLUS_4 CLUS_5
  SLC17A3 MUTATED        0      1      3      2      0
  SLC17A3 WILD-TYPE     39     31     40     28     32
D110V6, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               3                40
  CLUS_4               2                28
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A3 MUTATED        0      9      6
  SLC17A3 WILD-TYPE    150    176    137
D110V7, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               0               150
  CLUS_2               9               176
  CLUS_3               6               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC17A3 MUTATED        0      4      6      0      1      3      1
  SLC17A3 WILD-TYPE     72    105     84     44     48     43     67
D110V8, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               4               105
  CLUS_3               6                84
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               3                43
  CLUS_7               1                67
[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
  SLC17A3 MUTATED        3     10      2
  SLC17A3 WILD-TYPE    172    201     88
D110V9, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               3               172
  CLUS_2              10               201
  CLUS_3               2                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
  SLC17A3 MUTATED        2      4      1      8
  SLC17A3 WILD-TYPE     68    182    130     81
D110V10, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               4               182
  CLUS_3               1               130
  CLUS_4               8                81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC17A3 MUTATED        3      5      6
  SLC17A3 WILD-TYPE    138    177     83
D110V11, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               5               177
  CLUS_3               6                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
  SLC17A3 MUTATED        0     12      2
  SLC17A3 WILD-TYPE     94    221     83
D110V12, multiclass
        clus
vv       SLC17A3 MUTATED SLC17A3 WILD-TYPE
  CLUS_1               0                94
  CLUS_2              12               221
  CLUS_3               2                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"

Clustering(111) Variable = ITIH2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITIH2 MUTATED        0      3      0      0
  ITIH2 WILD-TYPE      5      4      5      3
D111V1, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             0               5
  CLUS_2             3               4
  CLUS_3             0               5
  CLUS_4             0               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
  ITIH2 MUTATED        1      2      0
  ITIH2 WILD-TYPE      6      7      4
D111V2, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             2               7
  CLUS_3             0               4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITIH2 MUTATED        3      6      7      3
  ITIH2 WILD-TYPE     62    204     65    128
D111V3, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             6             204
  CLUS_3             7              65
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITIH2 MUTATED        2      8      7
  ITIH2 WILD-TYPE    129    130    154
D111V4, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             8             130
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITIH2 MUTATED        1      2      2
  ITIH2 WILD-TYPE     41     69     61
D111V5, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             2              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
  ITIH2 MUTATED        2      1      1      1      0
  ITIH2 WILD-TYPE     37     31     42     29     32
D111V6, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITIH2 MUTATED        4      9      6
  ITIH2 WILD-TYPE    146    176    137
D111V7, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             9             176
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ITIH2 MUTATED        1      7      5      1      1      3      1
  ITIH2 WILD-TYPE     71    102     85     43     48     43     67
D111V8, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             7             102
  CLUS_3             5              85
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             3              43
  CLUS_7             1              67
[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
  ITIH2 MUTATED        4     11      4
  ITIH2 WILD-TYPE    171    200     86
D111V9, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2            11             200
  CLUS_3             4              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
  ITIH2 MUTATED        2      8      3      6
  ITIH2 WILD-TYPE     68    178    128     83
D111V10, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             8             178
  CLUS_3             3             128
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITIH2 MUTATED        4      9      3
  ITIH2 WILD-TYPE    137    173     86
D111V11, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             9             173
  CLUS_3             3              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
  ITIH2 MUTATED        1     15      0
  ITIH2 WILD-TYPE     93    218     85
D111V12, multiclass
        clus
vv       ITIH2 MUTATED ITIH2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2            15             218
  CLUS_3             0              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"

Clustering(112) Variable = HP1BP3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HP1BP3 MUTATED        0      1      0      0
  HP1BP3 WILD-TYPE      5      6      5      3
D112V1, multiclass
[1] "Remove cluster labels:" "HP1BP3 MUTATED"        
clus
  HP1BP3 MUTATED HP1BP3 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HP1BP3 MUTATED        1      0      0
  HP1BP3 WILD-TYPE      6      9      4
D112V2, multiclass
[1] "Remove cluster labels:" "HP1BP3 MUTATED"        
clus
  HP1BP3 MUTATED HP1BP3 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" "HP1BP3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HP1BP3 MUTATED        2      2      3      2
  HP1BP3 WILD-TYPE     63    208     69    129
D112V3, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              2              208
  CLUS_3              3               69
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HP1BP3 MUTATED        2      2      3
  HP1BP3 WILD-TYPE    129    136    158
D112V4, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              2              136
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HP1BP3 MUTATED        0      3      2
  HP1BP3 WILD-TYPE     42     68     61
D112V5, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              2               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
  HP1BP3 MUTATED        1      1      1      1      1
  HP1BP3 WILD-TYPE     38     31     42     29     31
D112V6, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HP1BP3 MUTATED        0      4      5
  HP1BP3 WILD-TYPE    150    181    138
D112V7, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              4              181
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HP1BP3 MUTATED        0      2      1      0      4      2      0
  HP1BP3 WILD-TYPE     72    107     89     44     45     44     68
D112V8, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              4               45
  CLUS_6              2               44
  CLUS_7              0               68
[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
  HP1BP3 MUTATED        0      8      1
  HP1BP3 WILD-TYPE    175    203     89
D112V9, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              0              175
  CLUS_2              8              203
  CLUS_3              1               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
  HP1BP3 MUTATED        1      3      0      5
  HP1BP3 WILD-TYPE     69    183    131     84
D112V10, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              183
  CLUS_3              0              131
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HP1BP3 MUTATED        0      5      1
  HP1BP3 WILD-TYPE    141    177     88
D112V11, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              0              141
  CLUS_2              5              177
  CLUS_3              1               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
  HP1BP3 MUTATED        0      6      0
  HP1BP3 WILD-TYPE     94    227     85
D112V12, multiclass
        clus
vv       HP1BP3 MUTATED HP1BP3 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              6              227
  CLUS_3              0               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"

Clustering(113) Variable = LAMA4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LAMA4 MUTATED        1      0      0      0
  LAMA4 WILD-TYPE      4      7      5      3
D113V1, multiclass
[1] "Remove cluster labels:" "LAMA4 MUTATED"         
clus
  LAMA4 MUTATED LAMA4 WILD-TYPE 
              1              19 
     TCGA-05-4249      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA4 MUTATED        1      0      0
  LAMA4 WILD-TYPE      6      9      4
D113V2, multiclass
[1] "Remove cluster labels:" "LAMA4 MUTATED"         
clus
  LAMA4 MUTATED LAMA4 WILD-TYPE 
              1              19 
     TCGA-05-4249      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" "LAMA4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LAMA4 MUTATED        8      6      8     12
  LAMA4 WILD-TYPE     57    204     64    119
D113V3, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             8              57
  CLUS_2             6             204
  CLUS_3             8              64
  CLUS_4            12             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA4 MUTATED        3     20      7
  LAMA4 WILD-TYPE    128    118    154
D113V4, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             3             128
  CLUS_2            20             118
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA4 MUTATED        3      4      3
  LAMA4 WILD-TYPE     39     67     60
D113V5, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             4              67
  CLUS_3             3              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
  LAMA4 MUTATED        1      1      5      2      1
  LAMA4 WILD-TYPE     38     31     38     28     31
D113V6, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             5              38
  CLUS_4             2              28
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA4 MUTATED        7     14     13
  LAMA4 WILD-TYPE    143    171    130
D113V7, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             7             143
  CLUS_2            14             171
  CLUS_3            13             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LAMA4 MUTATED        3      6     13      3      4      3      2
  LAMA4 WILD-TYPE     69    103     77     41     45     43     66
D113V8, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             6             103
  CLUS_3            13              77
  CLUS_4             3              41
  CLUS_5             4              45
  CLUS_6             3              43
  CLUS_7             2              66
[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
  LAMA4 MUTATED        8     22      4
  LAMA4 WILD-TYPE    167    189     86
D113V9, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             8             167
  CLUS_2            22             189
  CLUS_3             4              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
  LAMA4 MUTATED        4     13      4     13
  LAMA4 WILD-TYPE     66    173    127     76
D113V10, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             4              66
  CLUS_2            13             173
  CLUS_3             4             127
  CLUS_4            13              76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LAMA4 MUTATED        5     19      6
  LAMA4 WILD-TYPE    136    163     83
D113V11, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             5             136
  CLUS_2            19             163
  CLUS_3             6              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
  LAMA4 MUTATED        3     24      3
  LAMA4 WILD-TYPE     91    209     82
D113V12, multiclass
        clus
vv       LAMA4 MUTATED LAMA4 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            24             209
  CLUS_3             3              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"

Clustering(114) Variable = TMCO2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMCO2 MUTATED        0      0      0      0
  TMCO2 WILD-TYPE      5      7      5      3
D114V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO2 MUTATED        0      0      0
  TMCO2 WILD-TYPE      7      9      4
D114V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMCO2 MUTATED        1      1      1      3
  TMCO2 WILD-TYPE     64    209     71    128
D114V3, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             1             209
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO2 MUTATED        0      3      3
  TMCO2 WILD-TYPE    131    135    158
D114V4, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO2 MUTATED        1      0      1
  TMCO2 WILD-TYPE     41     71     62
D114V5, multiclass
[1] "Remove cluster labels:" "TMCO2 MUTATED"         
clus
  TMCO2 MUTATED TMCO2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMCO2 MUTATED        0      1      0      1      0
  TMCO2 WILD-TYPE     39     31     43     29     32
D114V6, multiclass
[1] "Remove cluster labels:" "TMCO2 MUTATED"         
clus
  TMCO2 MUTATED TMCO2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"TMCO2 WILD-TYPE" "TMCO2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO2 MUTATED        1      3      2
  TMCO2 WILD-TYPE    149    182    141
D114V7, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             3             182
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TMCO2 MUTATED        0      3      1      0      2      0      0
  TMCO2 WILD-TYPE     72    106     89     44     47     46     68
D114V8, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             0              46
  CLUS_7             0              68
[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
  TMCO2 MUTATED        1      4      1
  TMCO2 WILD-TYPE    174    207     89
D114V9, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             4             207
  CLUS_3             1              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
  TMCO2 MUTATED        0      4      1      1
  TMCO2 WILD-TYPE     70    182    130     88
D114V10, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TMCO2 MUTATED        0      5      1
  TMCO2 WILD-TYPE    141    177     88
D114V11, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             5             177
  CLUS_3             1              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
  TMCO2 MUTATED        0      6      0
  TMCO2 WILD-TYPE     94    227     85
D114V12, multiclass
        clus
vv       TMCO2 MUTATED TMCO2 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             6             227
  CLUS_3             0              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"

Clustering(115) Variable = N4BP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  N4BP1 MUTATED        0      0      0      0
  N4BP1 WILD-TYPE      5      7      5      3
D115V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP1 MUTATED        0      0      0
  N4BP1 WILD-TYPE      7      9      4
D115V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  N4BP1 MUTATED        0      4      3      2
  N4BP1 WILD-TYPE     65    206     69    129
D115V3, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             3              69
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP1 MUTATED        4      1      4
  N4BP1 WILD-TYPE    127    137    157
D115V4, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             1             137
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP1 MUTATED        0      2      0
  N4BP1 WILD-TYPE     42     69     63
D115V5, multiclass
[1] "Remove cluster labels:" "N4BP1 MUTATED"         
clus
  N4BP1 MUTATED N4BP1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4417      TCGA-05-4418 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  N4BP1 MUTATED        1      0      1      0      0
  N4BP1 WILD-TYPE     38     32     42     30     32
D115V6, multiclass
[1] "Remove cluster labels:" "N4BP1 MUTATED"         
clus
  N4BP1 MUTATED N4BP1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4417      TCGA-05-4418 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"N4BP1 WILD-TYPE" "N4BP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP1 MUTATED        4      5      0
  N4BP1 WILD-TYPE    146    180    143
D115V7, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             5             180
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  N4BP1 MUTATED        1      2      3      0      0      0      3
  N4BP1 WILD-TYPE     71    107     87     44     49     46     65
D115V8, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             2             107
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             3              65
[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
  N4BP1 MUTATED        4      5      0
  N4BP1 WILD-TYPE    171    206     90
D115V9, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             5             206
  CLUS_3             0              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
  N4BP1 MUTATED        0      1      4      4
  N4BP1 WILD-TYPE     70    185    127     85
D115V10, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             185
  CLUS_3             4             127
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  N4BP1 MUTATED        3      3      2
  N4BP1 WILD-TYPE    138    179     87
D115V11, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             2              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
  N4BP1 MUTATED        1      6      1
  N4BP1 WILD-TYPE     93    227     84
D115V12, multiclass
        clus
vv       N4BP1 MUTATED N4BP1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             6             227
  CLUS_3             1              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"

Clustering(116) Variable = MMP13 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP13 MUTATED        1      1      0      0
  MMP13 WILD-TYPE      4      6      5      3
D116V1, multiclass
[1] "Remove cluster labels:" "MMP13 MUTATED"         
clus
  MMP13 MUTATED MMP13 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-35-4122      TCGA-44-2656 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        0      2      0
  MMP13 WILD-TYPE      7      7      4
D116V2, multiclass
[1] "Remove cluster labels:" "MMP13 MUTATED"         
clus
  MMP13 MUTATED MMP13 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-35-4122      TCGA-44-2656 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"MMP13 WILD-TYPE" "MMP13 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MMP13 MUTATED        4      2      2      5
  MMP13 WILD-TYPE     61    208     70    126
D116V3, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        2      4      5
  MMP13 WILD-TYPE    129    134    156
D116V4, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             4             134
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        0      2      2
  MMP13 WILD-TYPE     42     69     61
D116V5, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2              69
  CLUS_3             2              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
  MMP13 MUTATED        0      1      3      0      0
  MMP13 WILD-TYPE     39     31     40     30     32
D116V6, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             3              40
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        1      7      5
  MMP13 WILD-TYPE    149    178    138
D116V7, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             7             178
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MMP13 MUTATED        1      7      1      1      3      0      0
  MMP13 WILD-TYPE     71    102     89     43     46     46     68
D116V8, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             7             102
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             3              46
  CLUS_6             0              46
  CLUS_7             0              68
[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
  MMP13 MUTATED        3      9      1
  MMP13 WILD-TYPE    172    202     89
D116V9, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             9             202
  CLUS_3             1              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
  MMP13 MUTATED        1      7      1      4
  MMP13 WILD-TYPE     69    179    130     85
D116V10, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             179
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MMP13 MUTATED        2      5      3
  MMP13 WILD-TYPE    139    177     86
D116V11, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             5             177
  CLUS_3             3              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
  MMP13 MUTATED        0      9      1
  MMP13 WILD-TYPE     94    224     84
D116V12, multiclass
        clus
vv       MMP13 MUTATED MMP13 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             9             224
  CLUS_3             1              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"

Clustering(117) Variable = ZACN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZACN MUTATED        0      0      0      0
  ZACN WILD-TYPE      5      7      5      3
D117V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZACN MUTATED        0      0      0
  ZACN WILD-TYPE      7      9      4
D117V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZACN MUTATED        1      4      0      3
  ZACN WILD-TYPE     64    206     72    128
D117V3, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            1             64
  CLUS_2            4            206
  CLUS_3            0             72
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZACN MUTATED        2      2      4
  ZACN WILD-TYPE    129    136    157
D117V4, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            2            129
  CLUS_2            2            136
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZACN MUTATED        0      1      0
  ZACN WILD-TYPE     42     70     63
D117V5, multiclass
[1] "Remove cluster labels:" "ZACN MUTATED"          
clus
  ZACN MUTATED ZACN WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5051     TCGA-50-5068 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZACN MUTATED        0      0      1      0      0
  ZACN WILD-TYPE     39     32     42     30     32
D117V6, multiclass
[1] "Remove cluster labels:" "ZACN MUTATED"          
clus
  ZACN MUTATED ZACN WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5051     TCGA-50-5068 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"ZACN WILD-TYPE" "ZACN WILD-TYPE" "ZACN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZACN MUTATED        2      4      2
  ZACN WILD-TYPE    148    181    141
D117V7, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            2            148
  CLUS_2            4            181
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZACN MUTATED        1      3      0      1      1      0      2
  ZACN WILD-TYPE     71    106     90     43     48     46     66
D117V8, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            0             90
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            0             46
  CLUS_7            2             66
[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
  ZACN MUTATED        3      5      0
  ZACN WILD-TYPE    172    206     90
D117V9, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            3            172
  CLUS_2            5            206
  CLUS_3            0             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
  ZACN MUTATED        3      2      1      2
  ZACN WILD-TYPE     67    184    130     87
D117V10, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            3             67
  CLUS_2            2            184
  CLUS_3            1            130
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZACN MUTATED        0      7      1
  ZACN WILD-TYPE    141    175     88
D117V11, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            0            141
  CLUS_2            7            175
  CLUS_3            1             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
  ZACN MUTATED        3      5      0
  ZACN WILD-TYPE     91    228     85
D117V12, multiclass
        clus
vv       ZACN MUTATED ZACN WILD-TYPE
  CLUS_1            3             91
  CLUS_2            5            228
  CLUS_3            0             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"

Clustering(118) Variable = SFTPB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFTPB MUTATED        0      0      0      0
  SFTPB WILD-TYPE      5      7      5      3
D118V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        0      0      0
  SFTPB WILD-TYPE      7      9      4
D118V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SFTPB MUTATED        2      0      1      3
  SFTPB WILD-TYPE     63    210     71    128
D118V3, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             2              63
  CLUS_2             0             210
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        0      2      4
  SFTPB WILD-TYPE    131    136    157
D118V4, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        0      1      0
  SFTPB WILD-TYPE     42     70     63
D118V5, multiclass
[1] "Remove cluster labels:" "SFTPB MUTATED"         
clus
  SFTPB MUTATED SFTPB WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-86-6562      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SFTPB MUTATED        0      0      1      0      0
  SFTPB WILD-TYPE     39     32     42     30     32
D118V6, multiclass
[1] "Remove cluster labels:" "SFTPB MUTATED"         
clus
  SFTPB MUTATED SFTPB WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-86-6562      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"SFTPB WILD-TYPE" "SFTPB WILD-TYPE" "SFTPB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        2      4      0
  SFTPB WILD-TYPE    148    181    143
D118V7, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             2             148
  CLUS_2             4             181
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SFTPB MUTATED        1      0      3      0      0      1      1
  SFTPB WILD-TYPE     71    109     87     44     49     45     67
D118V8, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             1              71
  CLUS_2             0             109
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  SFTPB MUTATED        1      5      0
  SFTPB WILD-TYPE    174    206     90
D118V9, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             1             174
  CLUS_2             5             206
  CLUS_3             0              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
  SFTPB MUTATED        0      3      1      2
  SFTPB WILD-TYPE     70    183    130     87
D118V10, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SFTPB MUTATED        0      4      1
  SFTPB WILD-TYPE    141    178     88
D118V11, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             0             141
  CLUS_2             4             178
  CLUS_3             1              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
  SFTPB MUTATED        1      4      0
  SFTPB WILD-TYPE     93    229     85
D118V12, multiclass
        clus
vv       SFTPB MUTATED SFTPB WILD-TYPE
  CLUS_1             1              93
  CLUS_2             4             229
  CLUS_3             0              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"

Clustering(119) Variable = SRRM3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRRM3 MUTATED        0      0      0      0
  SRRM3 WILD-TYPE      5      7      5      3
D119V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SRRM3 MUTATED        0      0      0
  SRRM3 WILD-TYPE      7      9      4
D119V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SRRM3 MUTATED        1      3      1      0
  SRRM3 WILD-TYPE     64    207     71    131
D119V3, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             3             207
  CLUS_3             1              71
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SRRM3 MUTATED        1      1      3
  SRRM3 WILD-TYPE    130    137    158
D119V4, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             1             137
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SRRM3 MUTATED        0      1      0
  SRRM3 WILD-TYPE     42     70     63
D119V5, multiclass
[1] "Remove cluster labels:" "SRRM3 MUTATED"         
clus
  SRRM3 MUTATED SRRM3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7761      TCGA-69-7763 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRRM3 MUTATED        0      0      1      0      0
  SRRM3 WILD-TYPE     39     32     42     30     32
D119V6, multiclass
[1] "Remove cluster labels:" "SRRM3 MUTATED"         
clus
  SRRM3 MUTATED SRRM3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7761      TCGA-69-7763 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" "SRRM3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SRRM3 MUTATED        2      2      1
  SRRM3 WILD-TYPE    148    183    142
D119V7, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             2             183
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SRRM3 MUTATED        0      3      0      0      1      0      1
  SRRM3 WILD-TYPE     72    106     90     44     48     46     67
D119V8, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             0              90
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  SRRM3 MUTATED        1      3      1
  SRRM3 WILD-TYPE    174    208     89
D119V9, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             3             208
  CLUS_3             1              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
  SRRM3 MUTATED        0      4      1      0
  SRRM3 WILD-TYPE     70    182    130     89
D119V10, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             1             130
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SRRM3 MUTATED        1      0      3
  SRRM3 WILD-TYPE    140    182     86
D119V11, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             0             182
  CLUS_3             3              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
  SRRM3 MUTATED        0      3      1
  SRRM3 WILD-TYPE     94    230     84
D119V12, multiclass
        clus
vv       SRRM3 MUTATED SRRM3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(120) Variable = FAM71A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM71A MUTATED        0      0      0      2
  FAM71A WILD-TYPE      5      7      5      1
D120V1, multiclass
[1] "Remove cluster labels:" "FAM71A MUTATED"        
clus
  FAM71A MUTATED FAM71A WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM71A MUTATED        0      0      2
  FAM71A WILD-TYPE      7      9      2
D120V2, multiclass
[1] "Remove cluster labels:" "FAM71A MUTATED"        
clus
  FAM71A MUTATED FAM71A WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"FAM71A WILD-TYPE" "FAM71A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM71A MUTATED        2      6      3      5
  FAM71A WILD-TYPE     63    204     69    126
D120V3, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6              204
  CLUS_3              3               69
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM71A MUTATED        3      5      5
  FAM71A WILD-TYPE    128    133    156
D120V4, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              3              128
  CLUS_2              5              133
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM71A MUTATED        0      3      3
  FAM71A WILD-TYPE     42     68     60
D120V5, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              3               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
  FAM71A MUTATED        1      1      4      0      0
  FAM71A WILD-TYPE     38     31     39     30     32
D120V6, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              4               39
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM71A MUTATED        1      8      7
  FAM71A WILD-TYPE    149    177    136
D120V7, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              1              149
  CLUS_2              8              177
  CLUS_3              7              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FAM71A MUTATED        0      3      7      0      2      4      0
  FAM71A WILD-TYPE     72    106     83     44     47     42     68
D120V8, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              7               83
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              4               42
  CLUS_7              0               68
[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
  FAM71A MUTATED        2     10      3
  FAM71A WILD-TYPE    173    201     87
D120V9, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              2              173
  CLUS_2             10              201
  CLUS_3              3               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
  FAM71A MUTATED        1      9      1      4
  FAM71A WILD-TYPE     69    177    130     85
D120V10, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              9              177
  CLUS_3              1              130
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM71A MUTATED        1      7      4
  FAM71A WILD-TYPE    140    175     85
D120V11, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              1              140
  CLUS_2              7              175
  CLUS_3              4               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
  FAM71A MUTATED        1     11      0
  FAM71A WILD-TYPE     93    222     85
D120V12, multiclass
        clus
vv       FAM71A MUTATED FAM71A WILD-TYPE
  CLUS_1              1               93
  CLUS_2             11              222
  CLUS_3              0               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"

Clustering(121) Variable = MCM9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCM9 MUTATED        0      0      0      0
  MCM9 WILD-TYPE      5      7      5      3
D121V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      0      0
  MCM9 WILD-TYPE      7      9      4
D121V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCM9 MUTATED        0      2      0      1
  MCM9 WILD-TYPE     65    208     72    130
D121V3, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            2            208
  CLUS_3            0             72
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      1      0
  MCM9 WILD-TYPE    131    137    161
D121V4, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1            429 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-2656 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-4112     TCGA-44-5643 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47A     TCGA-44-A47B 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-A47F     TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4487     TCGA-49-4488     TCGA-49-4490     TCGA-49-4512 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4514     TCGA-49-6742     TCGA-49-6743     TCGA-49-6744 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6745     TCGA-49-6761     TCGA-49-6767     TCGA-50-5044 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5045     TCGA-50-5049     TCGA-50-5051     TCGA-50-5055 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5066     TCGA-50-5068     TCGA-50-5072     TCGA-50-5930 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     TCGA-50-5935 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-5946     TCGA-50-6590     TCGA-50-6591 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6592     TCGA-50-6593     TCGA-50-6594     TCGA-50-6595 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-50-8457 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-8459     TCGA-50-8460     TCGA-53-7624     TCGA-53-7626 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-53-7813     TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6642     TCGA-55-6712     TCGA-55-6968     TCGA-55-6969 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6972     TCGA-55-6975 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6980     TCGA-55-6981 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-6983     TCGA-55-6984     TCGA-55-6985 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6986     TCGA-55-6987     TCGA-55-7227     TCGA-55-7281 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7283     TCGA-55-7284     TCGA-55-7570     TCGA-55-7573 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7574     TCGA-55-7576     TCGA-55-7724     TCGA-55-7725 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7726     TCGA-55-7727     TCGA-55-7728     TCGA-55-7815 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7816     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7995     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8097     TCGA-55-8203     TCGA-55-8204 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8205     TCGA-55-8206     TCGA-55-8207     TCGA-55-8208 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8299     TCGA-55-8301     TCGA-55-8302     TCGA-55-8505 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8506     TCGA-55-8507     TCGA-55-8508     TCGA-55-8510 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8511     TCGA-55-8512     TCGA-55-8513     TCGA-55-8514 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8614     TCGA-55-8615     TCGA-55-8616     TCGA-55-8619 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X     TCGA-55-A48Y 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491     TCGA-55-A492 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF     TCGA-55-A4DG 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-8394     TCGA-62-8395     TCGA-62-8397     TCGA-62-8398 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O     TCGA-62-A46P 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U     TCGA-62-A46V 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471     TCGA-62-A472 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5775 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5779     TCGA-64-5781     TCGA-64-5815 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-67-4679     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7765     TCGA-69-7973     TCGA-69-7974     TCGA-69-7978 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7980     TCGA-69-8253     TCGA-69-8254     TCGA-69-8255 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-A59K     TCGA-71-6725     TCGA-71-8520     TCGA-73-4658 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-4676     TCGA-73-7498     TCGA-73-7499     TCGA-75-5122 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-5125     TCGA-75-5126     TCGA-75-5146     TCGA-75-5147 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6203     TCGA-75-6205     TCGA-75-6206     TCGA-75-6207 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7025 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7146     TCGA-78-7147     TCGA-78-7148 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7220 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7535     TCGA-78-7536     TCGA-78-7537     TCGA-78-7539 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7540     TCGA-78-7542     TCGA-78-7633     TCGA-78-8640 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-8648     TCGA-78-8655     TCGA-78-8660     TCGA-78-8662 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-80-5611     TCGA-83-5908 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7701     TCGA-86-7711 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-7713     TCGA-86-7714     TCGA-86-7953     TCGA-86-7954 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8672     TCGA-86-8673 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8674     TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829     TCGA-91-6830 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6831     TCGA-91-6835     TCGA-91-6836     TCGA-91-6840 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6847     TCGA-91-6848     TCGA-91-6849     TCGA-91-7771 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-8496     TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-A4BD     TCGA-93-7347     TCGA-93-7348     TCGA-93-8067 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7039     TCGA-95-7043     TCGA-95-7562     TCGA-95-7567 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7944     TCGA-95-7947     TCGA-95-7948     TCGA-95-8039 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN     TCGA-95-A4VP 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7546     TCGA-97-7547     TCGA-97-7552     TCGA-97-7553 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7554     TCGA-97-7937     TCGA-97-7938     TCGA-97-7941 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8171     TCGA-97-8172     TCGA-97-8174     TCGA-97-8175 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8176     TCGA-97-8177     TCGA-97-8179     TCGA-97-8547 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0     TCGA-97-A4M1 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5     TCGA-97-A4M6 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025     TCGA-99-8028 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192     TCGA-J2-8194 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG     TCGA-L4-A4E5 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444     TCGA-MN-A4N1 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV     TCGA-MP-A4SW 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A4YP 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O     TCGA-NJ-A55R 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-O1-A52J 
"MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        1      0      0
  MCM9 WILD-TYPE     41     71     63
D121V5, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCM9 MUTATED        0      1      0      0      0
  MCM9 WILD-TYPE     39     31     43     30     32
D121V6, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      2      1
  MCM9 WILD-TYPE    150    183    142
D121V7, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            0            150
  CLUS_2            2            183
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MCM9 MUTATED        0      1      1      1      0      0      0
  MCM9 WILD-TYPE     72    108     89     43     49     46     68
D121V8, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            1             89
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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
  MCM9 MUTATED        1      2      0
  MCM9 WILD-TYPE    174    209     90
D121V9, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1            174
  CLUS_2            2            209
  CLUS_3            0             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
  MCM9 MUTATED        1      2      0      0
  MCM9 WILD-TYPE     69    184    131     89
D121V10, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            184
  CLUS_3            0            131
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      1      0
  MCM9 WILD-TYPE    141    181     89
D121V11, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1            411 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6978     TCGA-55-6979 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7227     TCGA-55-7281     TCGA-55-7283     TCGA-55-7284 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7570     TCGA-55-7573     TCGA-55-7574     TCGA-55-7576 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7724     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7816     TCGA-55-7903     TCGA-55-7907 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-7913     TCGA-55-7914 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7994     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8208     TCGA-55-8299     TCGA-55-8301 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8302     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8508     TCGA-55-8510     TCGA-55-8511     TCGA-55-8512 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8513     TCGA-55-8514     TCGA-55-8614     TCGA-55-8615 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8616     TCGA-55-8619     TCGA-55-8620     TCGA-55-8621 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A491     TCGA-55-A492     TCGA-55-A493     TCGA-55-A494 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-8397     TCGA-62-8398     TCGA-62-8399     TCGA-62-8402 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A471     TCGA-62-A472     TCGA-64-1679     TCGA-64-1681 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-6215     TCGA-67-6216 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7765     TCGA-69-7973 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7974     TCGA-69-7978     TCGA-69-7980     TCGA-69-8253 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-71-8520     TCGA-73-4658     TCGA-73-4676     TCGA-73-7498 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     TCGA-75-5126 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-5146     TCGA-75-5147     TCGA-75-6203     TCGA-75-6205 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6206     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7025     TCGA-75-7027     TCGA-75-7030 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7163 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5607 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-80-5608     TCGA-80-5611     TCGA-83-5908     TCGA-86-6562 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7701     TCGA-86-7711     TCGA-86-7713 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-7714     TCGA-86-7953     TCGA-86-7954     TCGA-86-7955 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8054     TCGA-86-8055     TCGA-86-8056     TCGA-86-8073 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8074     TCGA-86-8075     TCGA-86-8076     TCGA-86-8278 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8279     TCGA-86-8280     TCGA-86-8281     TCGA-86-8358 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8359     TCGA-86-8585     TCGA-86-8668     TCGA-86-8669 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8671     TCGA-86-8672     TCGA-86-8673     TCGA-86-8674 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6828     TCGA-91-6829     TCGA-91-6830     TCGA-91-6831 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6836     TCGA-91-6840     TCGA-91-6847 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6848     TCGA-91-6849     TCGA-91-7771     TCGA-91-8496 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-7347     TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7562     TCGA-95-7567     TCGA-95-7944     TCGA-95-7947 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7948     TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-97-8171     TCGA-97-8172 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8174     TCGA-97-8175     TCGA-97-8176     TCGA-97-8177 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8179     TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-99-8025     TCGA-99-8028     TCGA-99-8032     TCGA-99-8033 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      1      0
  MCM9 WILD-TYPE     94    232     85
D121V12, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             1            411 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6978     TCGA-55-6979 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7227     TCGA-55-7281     TCGA-55-7283     TCGA-55-7284 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7570     TCGA-55-7573     TCGA-55-7574     TCGA-55-7576 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7724     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7816     TCGA-55-7903     TCGA-55-7907 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-7913     TCGA-55-7914 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7994     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8208     TCGA-55-8299     TCGA-55-8301 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8302     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8508     TCGA-55-8510     TCGA-55-8511     TCGA-55-8512 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8513     TCGA-55-8514     TCGA-55-8614     TCGA-55-8615 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8616     TCGA-55-8619     TCGA-55-8620     TCGA-55-8621 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A491     TCGA-55-A492     TCGA-55-A493     TCGA-55-A494 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-8397     TCGA-62-8398     TCGA-62-8399     TCGA-62-8402 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A471     TCGA-62-A472     TCGA-64-1679     TCGA-64-1681 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-6215     TCGA-67-6216 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7765     TCGA-69-7973 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-7974     TCGA-69-7978     TCGA-69-7980     TCGA-69-8253 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-71-8520     TCGA-73-4658     TCGA-73-4676     TCGA-73-7498 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     TCGA-75-5126 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-5146     TCGA-75-5147     TCGA-75-6203     TCGA-75-6205 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6206     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7025     TCGA-75-7027     TCGA-75-7030 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7163 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5607 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-80-5608     TCGA-80-5611     TCGA-83-5908     TCGA-86-6562 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7701     TCGA-86-7711     TCGA-86-7713 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-7714     TCGA-86-7953     TCGA-86-7954     TCGA-86-7955 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8054     TCGA-86-8055     TCGA-86-8056     TCGA-86-8073 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8074     TCGA-86-8075     TCGA-86-8076     TCGA-86-8278 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8279     TCGA-86-8280     TCGA-86-8281     TCGA-86-8358 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8359     TCGA-86-8585     TCGA-86-8668     TCGA-86-8669 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-8671     TCGA-86-8672     TCGA-86-8673     TCGA-86-8674 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6828     TCGA-91-6829     TCGA-91-6830     TCGA-91-6831 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6836     TCGA-91-6840     TCGA-91-6847 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6848     TCGA-91-6849     TCGA-91-7771     TCGA-91-8496 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-7347     TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7562     TCGA-95-7567     TCGA-95-7944     TCGA-95-7947 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7948     TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-97-8171     TCGA-97-8172 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8174     TCGA-97-8175     TCGA-97-8176     TCGA-97-8177 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-8179     TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-99-8025     TCGA-99-8028     TCGA-99-8032     TCGA-99-8033 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 

Clustering(122) Variable = GRAP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRAP2 MUTATED        0      0      0      0
  GRAP2 WILD-TYPE      5      7      5      3
D122V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRAP2 MUTATED        0      0      0
  GRAP2 WILD-TYPE      7      9      4
D122V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRAP2 MUTATED        2      3      1      5
  GRAP2 WILD-TYPE     63    207     71    126
D122V3, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3             207
  CLUS_3             1              71
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRAP2 MUTATED        2      6      3
  GRAP2 WILD-TYPE    129    132    158
D122V4, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             6             132
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRAP2 MUTATED        0      2      1
  GRAP2 WILD-TYPE     42     69     62
D122V5, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2              69
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRAP2 MUTATED        1      0      2      0      0
  GRAP2 WILD-TYPE     38     32     41     30     32
D122V6, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRAP2 MUTATED        3      1      7
  GRAP2 WILD-TYPE    147    184    136
D122V7, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             1             184
  CLUS_3             7             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GRAP2 MUTATED        0      2      3      2      1      1      2
  GRAP2 WILD-TYPE     72    107     87     42     48     45     66
D122V8, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             3              87
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             2              66
[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
  GRAP2 MUTATED        4      5      2
  GRAP2 WILD-TYPE    171    206     88
D122V9, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             5             206
  CLUS_3             2              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
  GRAP2 MUTATED        2      3      2      4
  GRAP2 WILD-TYPE     68    183    129     85
D122V10, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             2             129
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRAP2 MUTATED        3      5      3
  GRAP2 WILD-TYPE    138    177     86
D122V11, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             3              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
  GRAP2 MUTATED        1      9      1
  GRAP2 WILD-TYPE     93    224     84
D122V12, multiclass
        clus
vv       GRAP2 MUTATED GRAP2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             9             224
  CLUS_3             1              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"

Clustering(123) Variable = ARHGAP4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP4 MUTATED        0      0      0      0
  ARHGAP4 WILD-TYPE      5      7      5      3
D123V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP4 MUTATED        0      0      0
  ARHGAP4 WILD-TYPE      7      9      4
D123V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGAP4 MUTATED        2      4      3      5
  ARHGAP4 WILD-TYPE     63    206     69    126
D123V3, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               4               206
  CLUS_3               3                69
  CLUS_4               5               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP4 MUTATED        3      7      4
  ARHGAP4 WILD-TYPE    128    131    157
D123V4, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               3               128
  CLUS_2               7               131
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP4 MUTATED        1      0      3
  ARHGAP4 WILD-TYPE     41     71     60
D123V5, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0                71
  CLUS_3               3                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
  ARHGAP4 MUTATED        0      2      1      0      1
  ARHGAP4 WILD-TYPE     39     30     42     30     31
D123V6, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               2                30
  CLUS_3               1                42
  CLUS_4               0                30
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP4 MUTATED        4      5      5
  ARHGAP4 WILD-TYPE    146    180    138
D123V7, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               4               146
  CLUS_2               5               180
  CLUS_3               5               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARHGAP4 MUTATED        1      4      6      1      1      1      0
  ARHGAP4 WILD-TYPE     71    105     84     43     48     45     68
D123V8, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               4               105
  CLUS_3               6                84
  CLUS_4               1                43
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               0                68
[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
  ARHGAP4 MUTATED        4      7      3
  ARHGAP4 WILD-TYPE    171    204     87
D123V9, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               4               171
  CLUS_2               7               204
  CLUS_3               3                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
  ARHGAP4 MUTATED        3      7      1      3
  ARHGAP4 WILD-TYPE     67    179    130     86
D123V10, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               7               179
  CLUS_3               1               130
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ARHGAP4 MUTATED        4      6      3
  ARHGAP4 WILD-TYPE    137    176     86
D123V11, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               4               137
  CLUS_2               6               176
  CLUS_3               3                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
  ARHGAP4 MUTATED        1      8      4
  ARHGAP4 WILD-TYPE     93    225     81
D123V12, multiclass
        clus
vv       ARHGAP4 MUTATED ARHGAP4 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               8               225
  CLUS_3               4                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"

Clustering(124) Variable = IFI35 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFI35 MUTATED        0      0      0      0
  IFI35 WILD-TYPE      5      7      5      3
D124V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        0      0      0
  IFI35 WILD-TYPE      7      9      4
D124V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFI35 MUTATED        1      2      0      0
  IFI35 WILD-TYPE     64    208     72    131
D124V3, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        1      0      2
  IFI35 WILD-TYPE    130    138    159
D124V4, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             0             138
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        0      1      0
  IFI35 WILD-TYPE     42     70     63
D124V5, multiclass
[1] "Remove cluster labels:" "IFI35 MUTATED"         
clus
  IFI35 MUTATED IFI35 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7947      TCGA-97-7546 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFI35 MUTATED        1      0      0      0      0
  IFI35 WILD-TYPE     38     32     43     30     32
D124V6, multiclass
[1] "Remove cluster labels:" "IFI35 MUTATED"         
clus
  IFI35 MUTATED IFI35 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7947      TCGA-97-7546 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"IFI35 WILD-TYPE" "IFI35 WILD-TYPE" "IFI35 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        0      3      0
  IFI35 WILD-TYPE    150    182    143
D124V7, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             3             182
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IFI35 MUTATED        0      3      0      0      0      0      0
  IFI35 WILD-TYPE     72    106     90     44     49     46     68
D124V8, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             0              90
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             0              68
[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
  IFI35 MUTATED        2      1      0
  IFI35 WILD-TYPE    173    210     90
D124V9, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             1             210
  CLUS_3             0              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
  IFI35 MUTATED        1      1      1      0
  IFI35 WILD-TYPE     69    185    130     89
D124V10, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             185
  CLUS_3             1             130
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFI35 MUTATED        0      3      0
  IFI35 WILD-TYPE    141    179     89
D124V11, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             3             179
  CLUS_3             0              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
  IFI35 MUTATED        0      3      0
  IFI35 WILD-TYPE     94    230     85
D124V12, multiclass
        clus
vv       IFI35 MUTATED IFI35 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             3             230
  CLUS_3             0              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"

Clustering(125) Variable = CDK12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK12 MUTATED        1      1      0      0
  CDK12 WILD-TYPE      4      6      5      3
D125V1, multiclass
[1] "Remove cluster labels:" "CDK12 MUTATED"         
clus
  CDK12 MUTATED CDK12 WILD-TYPE 
              2              18 
     TCGA-05-4249      TCGA-05-4250      TCGA-35-4123      TCGA-44-2656 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        1      1      0
  CDK12 WILD-TYPE      6      8      4
D125V2, multiclass
[1] "Remove cluster labels:" "CDK12 MUTATED"         
clus
  CDK12 MUTATED CDK12 WILD-TYPE 
              2              18 
     TCGA-05-4249      TCGA-05-4250      TCGA-35-4123      TCGA-44-2656 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK12 MUTATED        4      2      3      6
  CDK12 WILD-TYPE     61    208     69    125
D125V3, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             2             208
  CLUS_3             3              69
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        1      9      1
  CDK12 WILD-TYPE    130    129    160
D125V4, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             9             129
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        0      1      2
  CDK12 WILD-TYPE     42     70     61
D125V5, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             2              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
  CDK12 MUTATED        0      0      2      1      0
  CDK12 WILD-TYPE     39     32     41     29     32
D125V6, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        2      8      5
  CDK12 WILD-TYPE    148    177    138
D125V7, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             8             177
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDK12 MUTATED        1      5      3      0      2      4      0
  CDK12 WILD-TYPE     71    104     87     44     47     42     68
D125V8, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             4              42
  CLUS_7             0              68
[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
  CDK12 MUTATED        3      9      3
  CDK12 WILD-TYPE    172    202     87
D125V9, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             9             202
  CLUS_3             3              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
  CDK12 MUTATED        0      7      3      5
  CDK12 WILD-TYPE     70    179    128     84
D125V10, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             179
  CLUS_3             3             128
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        3      5      3
  CDK12 WILD-TYPE    138    177     86
D125V11, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             3              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
  CDK12 MUTATED        0     11      0
  CDK12 WILD-TYPE     94    222     85
D125V12, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             0              94
  CLUS_2            11             222
  CLUS_3             0              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"

Clustering(126) Variable = TMEM202 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM202 MUTATED        0      0      0      0
  TMEM202 WILD-TYPE      5      7      5      3
D126V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM202 MUTATED        0      0      0
  TMEM202 WILD-TYPE      7      9      4
D126V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM202 MUTATED        1      3      1      1
  TMEM202 WILD-TYPE     64    207     71    130
D126V3, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               3               207
  CLUS_3               1                71
  CLUS_4               1               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM202 MUTATED        2      3      1
  TMEM202 WILD-TYPE    129    135    160
D126V4, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               3               135
  CLUS_3               1               160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM202 MUTATED        1      0      0
  TMEM202 WILD-TYPE     41     71     63
D126V5, multiclass
[1] "Remove cluster labels:" "TMEM202 MUTATED"       
clus
  TMEM202 MUTATED TMEM202 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4396        TCGA-05-4398        TCGA-05-4402 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-05-4405        TCGA-05-4410        TCGA-05-4417        TCGA-05-4418 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-05-4420        TCGA-05-4422        TCGA-05-4426        TCGA-05-4430 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-05-5420        TCGA-05-5423        TCGA-05-5429        TCGA-05-5715 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-38-4626        TCGA-38-4627        TCGA-38-6178        TCGA-44-2656 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-2657        TCGA-44-2661        TCGA-44-2665        TCGA-44-3396 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-3919        TCGA-44-4112        TCGA-44-5645        TCGA-44-6145 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-6146        TCGA-44-6147        TCGA-44-6774        TCGA-44-6775 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM202 MUTATED        0      1      0      0      0
  TMEM202 WILD-TYPE     39     31     43     30     32
D126V6, multiclass
[1] "Remove cluster labels:" "TMEM202 MUTATED"       
clus
  TMEM202 MUTATED TMEM202 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4396        TCGA-05-4398        TCGA-05-4402 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-05-4405        TCGA-05-4410        TCGA-05-4417        TCGA-05-4418 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-05-4420        TCGA-05-4422        TCGA-05-4426        TCGA-05-4430 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-05-5420        TCGA-05-5423        TCGA-05-5429        TCGA-05-5715 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-38-4626        TCGA-38-4627        TCGA-38-6178        TCGA-44-2656 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-2657        TCGA-44-2661        TCGA-44-2665        TCGA-44-3396 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-3919        TCGA-44-4112        TCGA-44-5645        TCGA-44-6145 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-6146        TCGA-44-6147        TCGA-44-6774        TCGA-44-6775 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" "TMEM202 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM202 MUTATED        1      3      2
  TMEM202 WILD-TYPE    149    182    141
D126V7, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               3               182
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TMEM202 MUTATED        0      1      2      1      1      1      0
  TMEM202 WILD-TYPE     72    108     88     43     48     45     68
D126V8, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               1               108
  CLUS_3               2                88
  CLUS_4               1                43
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               0                68
[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
  TMEM202 MUTATED        3      3      0
  TMEM202 WILD-TYPE    172    208     90
D126V9, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               3               172
  CLUS_2               3               208
  CLUS_3               0                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
  TMEM202 MUTATED        2      1      1      2
  TMEM202 WILD-TYPE     68    185    130     87
D126V10, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               185
  CLUS_3               1               130
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM202 MUTATED        3      2      1
  TMEM202 WILD-TYPE    138    180     88
D126V11, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               2               180
  CLUS_3               1                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
  TMEM202 MUTATED        1      4      1
  TMEM202 WILD-TYPE     93    229     84
D126V12, multiclass
        clus
vv       TMEM202 MUTATED TMEM202 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               4               229
  CLUS_3               1                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"

Clustering(127) Variable = GTF2A1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF2A1 MUTATED        0      0      0      0
  GTF2A1 WILD-TYPE      5      7      5      3
D127V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2A1 MUTATED        0      0      0
  GTF2A1 WILD-TYPE      7      9      4
D127V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GTF2A1 MUTATED        1      1      0      1
  GTF2A1 WILD-TYPE     64    209     72    130
D127V3, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              1              209
  CLUS_3              0               72
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2A1 MUTATED        1      1      1
  GTF2A1 WILD-TYPE    130    137    160
D127V4, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              1              137
  CLUS_3              1              160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2A1 MUTATED        0      0      0
  GTF2A1 WILD-TYPE     42     71     63
D127V5, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GTF2A1 MUTATED        0      0      0      0      0
  GTF2A1 WILD-TYPE     39     32     43     30     32
D127V6, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2A1 MUTATED        0      1      2
  GTF2A1 WILD-TYPE    150    184    141
D127V7, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              1              184
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GTF2A1 MUTATED        0      0      2      1      0      0      0
  GTF2A1 WILD-TYPE     72    109     88     43     49     46     68
D127V8, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              0              109
  CLUS_3              2               88
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              0               68
[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
  GTF2A1 MUTATED        1      2      0
  GTF2A1 WILD-TYPE    174    209     90
D127V9, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              2              209
  CLUS_3              0               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
  GTF2A1 MUTATED        1      1      0      1
  GTF2A1 WILD-TYPE     69    185    131     88
D127V10, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1              185
  CLUS_3              0              131
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GTF2A1 MUTATED        2      1      0
  GTF2A1 WILD-TYPE    139    181     89
D127V11, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              1              181
  CLUS_3              0               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
  GTF2A1 MUTATED        1      2      0
  GTF2A1 WILD-TYPE     93    231     85
D127V12, multiclass
        clus
vv       GTF2A1 MUTATED GTF2A1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              2              231
  CLUS_3              0               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"

Clustering(128) Variable = SERPINB13 MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINB13 MUTATED        0      0      0      1
  SERPINB13 WILD-TYPE      5      7      5      2
D128V1, multiclass
[1] "Remove cluster labels:" "SERPINB13 MUTATED"     
clus
  SERPINB13 MUTATED SERPINB13 WILD-TYPE 
                  1                  19 
         TCGA-05-4244          TCGA-05-4249          TCGA-05-4250 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-35-4122          TCGA-35-4123          TCGA-44-2656 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-44-2657          TCGA-44-2661          TCGA-44-2665 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-44-3398          TCGA-44-3918          TCGA-44-3919 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-44-4112          TCGA-55-1592          TCGA-55-1595 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-64-1676          TCGA-64-1677          TCGA-67-3772 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-67-3773 
"SERPINB13 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB13 MUTATED        0      0      1
  SERPINB13 WILD-TYPE      7      9      3
D128V2, multiclass
[1] "Remove cluster labels:" "SERPINB13 MUTATED"     
clus
  SERPINB13 MUTATED SERPINB13 WILD-TYPE 
                  1                  19 
         TCGA-05-4244          TCGA-05-4249          TCGA-05-4250 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-35-4122          TCGA-35-4123          TCGA-44-2656 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-44-2657          TCGA-44-2661          TCGA-44-2665 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-44-3398          TCGA-44-3918          TCGA-44-3919 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-44-4112          TCGA-55-1592          TCGA-55-1595 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-64-1676          TCGA-64-1677          TCGA-67-3772 
"SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" "SERPINB13 WILD-TYPE" 
         TCGA-67-3773 
"SERPINB13 WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINB13 MUTATED        3      2      2      3
  SERPINB13 WILD-TYPE     62    208     70    128
D128V3, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 3                  62
  CLUS_2                 2                 208
  CLUS_3                 2                  70
  CLUS_4                 3                 128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB13 MUTATED        3      1      2
  SERPINB13 WILD-TYPE    128    137    159
D128V4, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 3                 128
  CLUS_2                 1                 137
  CLUS_3                 2                 159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB13 MUTATED        1      3      4
  SERPINB13 WILD-TYPE     41     68     59
D128V5, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 3                  68
  CLUS_3                 4                  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 CLUS_4 CLUS_5
  SERPINB13 MUTATED        0      2      2      3      1
  SERPINB13 WILD-TYPE     39     30     41     27     31
D128V6, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 0                  39
  CLUS_2                 2                  30
  CLUS_3                 2                  41
  CLUS_4                 3                  27
  CLUS_5                 1                  31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB13 MUTATED        1      6      3
  SERPINB13 WILD-TYPE    149    179    140
D128V7, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 1                 149
  CLUS_2                 6                 179
  CLUS_3                 3                 140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SERPINB13 MUTATED        1      4      1      0      2      2      0
  SERPINB13 WILD-TYPE     71    105     89     44     47     44     68
D128V8, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 1                  71
  CLUS_2                 4                 105
  CLUS_3                 1                  89
  CLUS_4                 0                  44
  CLUS_5                 2                  47
  CLUS_6                 2                  44
  CLUS_7                 0                  68
[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
  SERPINB13 MUTATED        1      5      3
  SERPINB13 WILD-TYPE    174    206     87
D128V9, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 1                 174
  CLUS_2                 5                 206
  CLUS_3                 3                  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
  SERPINB13 MUTATED        0      5      1      3
  SERPINB13 WILD-TYPE     70    181    130     86
D128V10, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 5                 181
  CLUS_3                 1                 130
  CLUS_4                 3                  86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  SERPINB13 MUTATED        1      1      4
  SERPINB13 WILD-TYPE    140    181     85
D128V11, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 1                 140
  CLUS_2                 1                 181
  CLUS_3                 4                  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
  SERPINB13 MUTATED        0      4      2
  SERPINB13 WILD-TYPE     94    229     83
D128V12, multiclass
        clus
vv       SERPINB13 MUTATED SERPINB13 WILD-TYPE
  CLUS_1                 0                  94
  CLUS_2                 4                 229
  CLUS_3                 2                  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"

Clustering(129) Variable = RAMP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAMP2 MUTATED        0      0      0      0
  RAMP2 WILD-TYPE      5      7      5      3
D129V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAMP2 MUTATED        0      0      0
  RAMP2 WILD-TYPE      7      9      4
D129V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAMP2 MUTATED        0      2      1      0
  RAMP2 WILD-TYPE     65    208     71    131
D129V3, multiclass
        clus
vv       RAMP2 MUTATED RAMP2 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             1              71
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAMP2 MUTATED        1      0      1
  RAMP2 WILD-TYPE    130    138    160
D129V4, multiclass
[1] "Remove cluster labels:" "RAMP2 MUTATED"         
clus
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              2             428 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-2656 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-4112      TCGA-44-5643 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47A      TCGA-44-A47B 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-A47F      TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4487      TCGA-49-4488      TCGA-49-4490      TCGA-49-4512 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4514      TCGA-49-6742      TCGA-49-6743      TCGA-49-6744 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5045      TCGA-50-5049      TCGA-50-5051      TCGA-50-5055 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5066      TCGA-50-5068      TCGA-50-5072      TCGA-50-5930 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5935 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-5946      TCGA-50-6590      TCGA-50-6591 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6592      TCGA-50-6593      TCGA-50-6594      TCGA-50-6595 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-50-8457 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-8459      TCGA-50-8460      TCGA-53-7624      TCGA-53-7626 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-53-7813      TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6642      TCGA-55-6712      TCGA-55-6968      TCGA-55-6969 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6972      TCGA-55-6975 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6980      TCGA-55-6981 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-6983      TCGA-55-6984      TCGA-55-6985 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6986      TCGA-55-6987      TCGA-55-7227      TCGA-55-7281 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7283      TCGA-55-7284      TCGA-55-7570      TCGA-55-7573 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7574      TCGA-55-7576      TCGA-55-7724      TCGA-55-7725 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7726      TCGA-55-7727      TCGA-55-7728      TCGA-55-7815 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7816      TCGA-55-7903      TCGA-55-7910      TCGA-55-7911 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7913      TCGA-55-7914      TCGA-55-7994      TCGA-55-7995 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8085      TCGA-55-8087      TCGA-55-8090      TCGA-55-8091 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8092      TCGA-55-8094      TCGA-55-8096      TCGA-55-8097 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8203      TCGA-55-8204      TCGA-55-8205      TCGA-55-8206 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8207      TCGA-55-8208      TCGA-55-8299      TCGA-55-8301 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8302      TCGA-55-8505      TCGA-55-8506      TCGA-55-8507 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8508      TCGA-55-8510      TCGA-55-8511      TCGA-55-8512 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8513      TCGA-55-8514      TCGA-55-8614      TCGA-55-8615 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8616      TCGA-55-8619      TCGA-55-8620      TCGA-55-8621 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A48X      TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A491      TCGA-55-A492      TCGA-55-A493      TCGA-55-A494 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A4DF      TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-8397      TCGA-62-8398      TCGA-62-8399      TCGA-62-8402 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A46O      TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A46U      TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A471      TCGA-62-A472      TCGA-64-1679      TCGA-64-1681 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-5774      TCGA-64-5775      TCGA-64-5778      TCGA-64-5779 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-5781      TCGA-64-5815      TCGA-67-4679      TCGA-67-6215 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-69-7973 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7974      TCGA-69-7978      TCGA-69-7979      TCGA-69-7980 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-8253      TCGA-69-8254      TCGA-69-8255      TCGA-69-A59K 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-71-6725      TCGA-71-8520      TCGA-73-4658      TCGA-73-4676 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-5125 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-5126      TCGA-75-5146      TCGA-75-5147      TCGA-75-6203 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6206      TCGA-75-6207      TCGA-75-6211 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-6212      TCGA-75-6214      TCGA-75-7025      TCGA-75-7027 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7146      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7220      TCGA-78-7535 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-78-8640      TCGA-78-8648 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-8655      TCGA-78-8660      TCGA-78-8662      TCGA-80-5607 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-80-5608      TCGA-80-5611      TCGA-83-5908      TCGA-86-6562 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7701      TCGA-86-7711      TCGA-86-7713 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-7714      TCGA-86-7953      TCGA-86-7954      TCGA-86-7955 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8054      TCGA-86-8055      TCGA-86-8056      TCGA-86-8073 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8074      TCGA-86-8075      TCGA-86-8076      TCGA-86-8278 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8279      TCGA-86-8280      TCGA-86-8281      TCGA-86-8358 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8359      TCGA-86-8585      TCGA-86-8668      TCGA-86-8669 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8671      TCGA-86-8672      TCGA-86-8673      TCGA-86-8674 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-A456      TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6828      TCGA-91-6829      TCGA-91-6830      TCGA-91-6831 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6836      TCGA-91-6840      TCGA-91-6847 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6848      TCGA-91-6849      TCGA-91-7771      TCGA-91-8496 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-8497      TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-93-7347      TCGA-93-7348      TCGA-93-8067      TCGA-93-A4JN 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-93-A4JO      TCGA-93-A4JP      TCGA-93-A4JQ      TCGA-95-7039 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7562      TCGA-95-7567      TCGA-95-7944 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-95-8039      TCGA-95-8494 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-A4VK      TCGA-95-A4VN      TCGA-95-A4VP      TCGA-97-7546 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7547      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7937      TCGA-97-7938      TCGA-97-7941      TCGA-97-8171 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-8172      TCGA-97-8174      TCGA-97-8175      TCGA-97-8176 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-8177      TCGA-97-8179      TCGA-97-8547      TCGA-97-8552 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-A4LX      TCGA-97-A4M0      TCGA-97-A4M1      TCGA-97-A4M2 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-A4M3      TCGA-97-A4M5      TCGA-97-A4M6      TCGA-97-A4M7 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-99-7458      TCGA-99-8025      TCGA-99-8028      TCGA-99-8032 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-99-8033      TCGA-J2-8192      TCGA-J2-8194      TCGA-J2-A4AD 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-J2-A4AE      TCGA-J2-A4AG      TCGA-L4-A4E5      TCGA-L4-A4E6 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-L9-A443      TCGA-L9-A444      TCGA-MN-A4N1      TCGA-MN-A4N4 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MN-A4N5      TCGA-MP-A4SV      TCGA-MP-A4SW      TCGA-MP-A4SY 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4T2      TCGA-MP-A4T4      TCGA-MP-A4T6      TCGA-MP-A4T7 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4T8      TCGA-MP-A4T9      TCGA-MP-A4TA      TCGA-MP-A4TC 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4TD      TCGA-MP-A4TE      TCGA-MP-A4TF      TCGA-MP-A4TH 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4TI      TCGA-MP-A4TK      TCGA-MP-A5C7      TCGA-NJ-A4YF 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-NJ-A4YG      TCGA-NJ-A4YI      TCGA-NJ-A4YP      TCGA-NJ-A4YQ 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-NJ-A55A      TCGA-NJ-A55O      TCGA-NJ-A55R      TCGA-O1-A52J 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAMP2 MUTATED        1      0      0
  RAMP2 WILD-TYPE     41     71     63
D129V5, multiclass
[1] "Remove cluster labels:" "RAMP2 MUTATED"         
clus
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAMP2 MUTATED        0      0      0      0      1
  RAMP2 WILD-TYPE     39     32     43     30     31
D129V6, multiclass
[1] "Remove cluster labels:" "RAMP2 MUTATED"         
clus
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAMP2 MUTATED        1      2      0
  RAMP2 WILD-TYPE    149    183    143
D129V7, multiclass
        clus
vv       RAMP2 MUTATED RAMP2 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             2             183
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RAMP2 MUTATED        1      0      0      0      0      1      1
  RAMP2 WILD-TYPE     71    109     90     44     49     45     67
D129V8, multiclass
        clus
vv       RAMP2 MUTATED RAMP2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             0             109
  CLUS_3             0              90
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  RAMP2 MUTATED        1      2      0
  RAMP2 WILD-TYPE    174    209     90
D129V9, multiclass
        clus
vv       RAMP2 MUTATED RAMP2 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             2             209
  CLUS_3             0              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
  RAMP2 MUTATED        0      3      0      0
  RAMP2 WILD-TYPE     70    183    131     89
D129V10, multiclass
        clus
vv       RAMP2 MUTATED RAMP2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             183
  CLUS_3             0             131
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAMP2 MUTATED        1      1      0
  RAMP2 WILD-TYPE    140    181     89
D129V11, multiclass
[1] "Remove cluster labels:" "RAMP2 MUTATED"         
clus
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5930      TCGA-50-5931 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5932      TCGA-50-5933      TCGA-50-5935      TCGA-50-5936 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5946      TCGA-50-6590      TCGA-50-6591      TCGA-50-6592 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6594      TCGA-50-6595      TCGA-50-6597 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-50-8457      TCGA-50-8459 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-8460      TCGA-53-7624      TCGA-53-7626      TCGA-53-7813 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7726      TCGA-55-7727      TCGA-55-7728 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7816      TCGA-55-7903      TCGA-55-7910 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7911      TCGA-55-7913      TCGA-55-7914      TCGA-55-7994 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8085      TCGA-55-8087      TCGA-55-8090      TCGA-55-8091 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8092      TCGA-55-8094      TCGA-55-8096      TCGA-55-8203 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8204      TCGA-55-8205      TCGA-55-8206      TCGA-55-8208 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8299      TCGA-55-8301      TCGA-55-8302      TCGA-55-8505 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8506      TCGA-55-8507      TCGA-55-8508      TCGA-55-8510 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8511      TCGA-55-8512      TCGA-55-8513      TCGA-55-8514 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8614      TCGA-55-8615      TCGA-55-8616      TCGA-55-8619 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X      TCGA-55-A48Y 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491      TCGA-55-A492 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF      TCGA-55-A4DG 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-8394      TCGA-62-8395      TCGA-62-8397      TCGA-62-8398 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O      TCGA-62-A46P 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U      TCGA-62-A46V 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471      TCGA-62-A472 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5775 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5779      TCGA-64-5781      TCGA-64-5815 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-67-6215      TCGA-67-6216      TCGA-67-6217      TCGA-69-7760 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7765      TCGA-69-7973      TCGA-69-7974      TCGA-69-7978 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7979      TCGA-69-7980      TCGA-69-8253      TCGA-69-8254 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725      TCGA-71-8520 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7159 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RAMP2 MUTATED        0      1      1
  RAMP2 WILD-TYPE     94    232     84
D129V12, multiclass
[1] "Remove cluster labels:" "RAMP2 MUTATED"         
clus
  RAMP2 MUTATED RAMP2 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5930      TCGA-50-5931 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5932      TCGA-50-5933      TCGA-50-5935      TCGA-50-5936 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-5946      TCGA-50-6590      TCGA-50-6591      TCGA-50-6592 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6594      TCGA-50-6595      TCGA-50-6597 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-50-8457      TCGA-50-8459 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-50-8460      TCGA-53-7624      TCGA-53-7626      TCGA-53-7813 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7726      TCGA-55-7727      TCGA-55-7728 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7816      TCGA-55-7903      TCGA-55-7910 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-7911      TCGA-55-7913      TCGA-55-7914      TCGA-55-7994 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8085      TCGA-55-8087      TCGA-55-8090      TCGA-55-8091 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8092      TCGA-55-8094      TCGA-55-8096      TCGA-55-8203 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8204      TCGA-55-8205      TCGA-55-8206      TCGA-55-8208 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8299      TCGA-55-8301      TCGA-55-8302      TCGA-55-8505 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8506      TCGA-55-8507      TCGA-55-8508      TCGA-55-8510 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8511      TCGA-55-8512      TCGA-55-8513      TCGA-55-8514 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8614      TCGA-55-8615      TCGA-55-8616      TCGA-55-8619 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X      TCGA-55-A48Y 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491      TCGA-55-A492 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF      TCGA-55-A4DG 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-8394      TCGA-62-8395      TCGA-62-8397      TCGA-62-8398 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O      TCGA-62-A46P 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U      TCGA-62-A46V 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471      TCGA-62-A472 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5775 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5779      TCGA-64-5781      TCGA-64-5815 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-67-6215      TCGA-67-6216      TCGA-67-6217      TCGA-69-7760 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7765      TCGA-69-7973      TCGA-69-7974      TCGA-69-7978 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-7979      TCGA-69-7980      TCGA-69-8253      TCGA-69-8254 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725      TCGA-71-8520 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7159 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"RAMP2 WILD-TYPE" "RAMP2 WILD-TYPE" 

Clustering(130) Variable = RNASEH1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNASEH1 MUTATED        0      0      0      0
  RNASEH1 WILD-TYPE      5      7      5      3
D130V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RNASEH1 MUTATED        0      0      0
  RNASEH1 WILD-TYPE      7      9      4
D130V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNASEH1 MUTATED        0      3      0      3
  RNASEH1 WILD-TYPE     65    207     72    128
D130V3, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               3               207
  CLUS_3               0                72
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RNASEH1 MUTATED        0      2      4
  RNASEH1 WILD-TYPE    131    136    157
D130V4, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               2               136
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RNASEH1 MUTATED        0      0      1
  RNASEH1 WILD-TYPE     42     71     62
D130V5, multiclass
[1] "Remove cluster labels:" "RNASEH1 MUTATED"       
clus
  RNASEH1 MUTATED RNASEH1 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6767 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNASEH1 MUTATED        0      0      1      0      0
  RNASEH1 WILD-TYPE     39     32     42     30     32
D130V6, multiclass
[1] "Remove cluster labels:" "RNASEH1 MUTATED"       
clus
  RNASEH1 MUTATED RNASEH1 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6767 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" "RNASEH1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RNASEH1 MUTATED        1      3      2
  RNASEH1 WILD-TYPE    149    182    141
D130V7, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               3               182
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RNASEH1 MUTATED        0      3      1      0      1      1      0
  RNASEH1 WILD-TYPE     72    106     89     44     48     45     68
D130V8, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               1                89
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               0                68
[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
  RNASEH1 MUTATED        0      4      2
  RNASEH1 WILD-TYPE    175    207     88
D130V9, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               0               175
  CLUS_2               4               207
  CLUS_3               2                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
  RNASEH1 MUTATED        0      3      0      3
  RNASEH1 WILD-TYPE     70    183    131     86
D130V10, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               183
  CLUS_3               0               131
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  RNASEH1 MUTATED        2      2      2
  RNASEH1 WILD-TYPE    139    180     87
D130V11, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               2               180
  CLUS_3               2                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
  RNASEH1 MUTATED        0      5      1
  RNASEH1 WILD-TYPE     94    228     84
D130V12, multiclass
        clus
vv       RNASEH1 MUTATED RNASEH1 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               5               228
  CLUS_3               1                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"

Clustering(131) Variable = GLTSCR1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLTSCR1 MUTATED        0      0      0      0
  GLTSCR1 WILD-TYPE      5      7      5      3
D131V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        0      0      0
  GLTSCR1 WILD-TYPE      7      9      4
D131V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GLTSCR1 MUTATED        2      1      1      4
  GLTSCR1 WILD-TYPE     63    209     71    127
D131V3, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               1               209
  CLUS_3               1                71
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        0      3      5
  GLTSCR1 WILD-TYPE    131    135    156
D131V4, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               3               135
  CLUS_3               5               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        1      1      2
  GLTSCR1 WILD-TYPE     41     70     61
D131V5, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1                70
  CLUS_3               2                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
  GLTSCR1 MUTATED        0      1      2      0      1
  GLTSCR1 WILD-TYPE     39     31     41     30     31
D131V6, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               2                41
  CLUS_4               0                30
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        1      4      3
  GLTSCR1 WILD-TYPE    149    181    140
D131V7, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               4               181
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GLTSCR1 MUTATED        0      3      2      0      1      1      1
  GLTSCR1 WILD-TYPE     72    106     88     44     48     45     67
D131V8, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               1                67
[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
  GLTSCR1 MUTATED        1      5      2
  GLTSCR1 WILD-TYPE    174    206     88
D131V9, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               5               206
  CLUS_3               2                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
  GLTSCR1 MUTATED        1      6      0      1
  GLTSCR1 WILD-TYPE     69    180    131     88
D131V10, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               180
  CLUS_3               0               131
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GLTSCR1 MUTATED        4      4      0
  GLTSCR1 WILD-TYPE    137    178     89
D131V11, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               4               137
  CLUS_2               4               178
  CLUS_3               0                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
  GLTSCR1 MUTATED        1      5      2
  GLTSCR1 WILD-TYPE     93    228     83
D131V12, multiclass
        clus
vv       GLTSCR1 MUTATED GLTSCR1 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               5               228
  CLUS_3               2                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"

Clustering(132) Variable = PDE1A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDE1A MUTATED        0      0      1      0
  PDE1A WILD-TYPE      5      7      4      3
D132V1, multiclass
[1] "Remove cluster labels:" "PDE1A MUTATED"         
clus
  PDE1A MUTATED PDE1A WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2661      TCGA-44-2665 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE1A MUTATED        1      0      0
  PDE1A WILD-TYPE      6      9      4
D132V2, multiclass
[1] "Remove cluster labels:" "PDE1A MUTATED"         
clus
  PDE1A MUTATED PDE1A WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2661      TCGA-44-2665 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"PDE1A WILD-TYPE" "PDE1A WILD-TYPE" "PDE1A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PDE1A MUTATED        2      6      3      4
  PDE1A WILD-TYPE     63    204     69    127
D132V3, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             2              63
  CLUS_2             6             204
  CLUS_3             3              69
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE1A MUTATED        1      6      5
  PDE1A WILD-TYPE    130    132    156
D132V4, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             1             130
  CLUS_2             6             132
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE1A MUTATED        2      4      2
  PDE1A WILD-TYPE     40     67     61
D132V5, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4              67
  CLUS_3             2              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
  PDE1A MUTATED        2      0      1      3      2
  PDE1A WILD-TYPE     37     32     42     27     30
D132V6, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             3              27
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE1A MUTATED        2      7      6
  PDE1A WILD-TYPE    148    178    137
D132V7, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             2             148
  CLUS_2             7             178
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PDE1A MUTATED        0      3      4      1      2      3      2
  PDE1A WILD-TYPE     72    106     86     43     47     43     66
D132V8, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             4              86
  CLUS_4             1              43
  CLUS_5             2              47
  CLUS_6             3              43
  CLUS_7             2              66
[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
  PDE1A MUTATED        4      9      2
  PDE1A WILD-TYPE    171    202     88
D132V9, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             4             171
  CLUS_2             9             202
  CLUS_3             2              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
  PDE1A MUTATED        2      6      2      5
  PDE1A WILD-TYPE     68    180    129     84
D132V10, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             180
  CLUS_3             2             129
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE1A MUTATED        6      5      1
  PDE1A WILD-TYPE    135    177     88
D132V11, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             6             135
  CLUS_2             5             177
  CLUS_3             1              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
  PDE1A MUTATED        2      9      1
  PDE1A WILD-TYPE     92    224     84
D132V12, multiclass
        clus
vv       PDE1A MUTATED PDE1A WILD-TYPE
  CLUS_1             2              92
  CLUS_2             9             224
  CLUS_3             1              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"

Clustering(133) Variable = SATB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SATB2 MUTATED        0      2      0      0
  SATB2 WILD-TYPE      5      5      5      3
D133V1, multiclass
[1] "Remove cluster labels:" "SATB2 MUTATED"         
clus
  SATB2 MUTATED SATB2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1677      TCGA-67-3771 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB2 MUTATED        0      2      0
  SATB2 WILD-TYPE      7      7      4
D133V2, multiclass
[1] "Remove cluster labels:" "SATB2 MUTATED"         
clus
  SATB2 MUTATED SATB2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1677      TCGA-67-3771 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"SATB2 WILD-TYPE" "SATB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SATB2 MUTATED        3     10      4     14
  SATB2 WILD-TYPE     62    200     68    117
D133V3, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             3              62
  CLUS_2            10             200
  CLUS_3             4              68
  CLUS_4            14             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB2 MUTATED        7      8     10
  SATB2 WILD-TYPE    124    130    151
D133V4, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             7             124
  CLUS_2             8             130
  CLUS_3            10             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB2 MUTATED        1      3      4
  SATB2 WILD-TYPE     41     68     59
D133V5, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             4              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 CLUS_4 CLUS_5
  SATB2 MUTATED        0      1      4      1      2
  SATB2 WILD-TYPE     39     31     39     29     30
D133V6, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             4              39
  CLUS_4             1              29
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB2 MUTATED        6     22      3
  SATB2 WILD-TYPE    144    163    140
D133V7, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             6             144
  CLUS_2            22             163
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SATB2 MUTATED        2     15      7      0      2      1      4
  SATB2 WILD-TYPE     70     94     83     44     47     45     64
D133V8, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             2              70
  CLUS_2            15              94
  CLUS_3             7              83
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             4              64
[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
  SATB2 MUTATED        8     15      7
  SATB2 WILD-TYPE    167    196     83
D133V9, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             8             167
  CLUS_2            15             196
  CLUS_3             7              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
  SATB2 MUTATED        5     11      5      9
  SATB2 WILD-TYPE     65    175    126     80
D133V10, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             5              65
  CLUS_2            11             175
  CLUS_3             5             126
  CLUS_4             9              80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SATB2 MUTATED        6      9      9
  SATB2 WILD-TYPE    135    173     80
D133V11, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             6             135
  CLUS_2             9             173
  CLUS_3             9              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
  SATB2 MUTATED        2     14      8
  SATB2 WILD-TYPE     92    219     77
D133V12, multiclass
        clus
vv       SATB2 MUTATED SATB2 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            14             219
  CLUS_3             8              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"

Clustering(134) Variable = RAF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAF1 MUTATED        0      0      0      0
  RAF1 WILD-TYPE      5      7      5      3
D134V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        0      0      0
  RAF1 WILD-TYPE      7      9      4
D134V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAF1 MUTATED        0      3      1      2
  RAF1 WILD-TYPE     65    207     71    129
D134V3, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            3            207
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        2      2      2
  RAF1 WILD-TYPE    129    136    159
D134V4, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            2            136
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        1      0      1
  RAF1 WILD-TYPE     41     71     62
D134V5, multiclass
[1] "Remove cluster labels:" "RAF1 MUTATED"          
clus
  RAF1 MUTATED RAF1 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-71-6725     TCGA-73-4658 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7552 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RAF1 MUTATED        0      0      0      0      2
  RAF1 WILD-TYPE     39     32     43     30     30
D134V6, multiclass
[1] "Remove cluster labels:" "RAF1 MUTATED"          
clus
  RAF1 MUTATED RAF1 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-71-6725     TCGA-73-4658 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7552 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RAF1 WILD-TYPE" "RAF1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        1      3      2
  RAF1 WILD-TYPE    149    182    141
D134V7, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            3            182
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RAF1 MUTATED        1      2      1      0      0      2      0
  RAF1 WILD-TYPE     71    107     89     44     49     44     68
D134V8, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            2            107
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            2             44
  CLUS_7            0             68
[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
  RAF1 MUTATED        2      3      1
  RAF1 WILD-TYPE    173    208     89
D134V9, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            3            208
  CLUS_3            1             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
  RAF1 MUTATED        1      1      1      3
  RAF1 WILD-TYPE     69    185    130     86
D134V10, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            185
  CLUS_3            1            130
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        4      0      2
  RAF1 WILD-TYPE    137    182     87
D134V11, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            0            182
  CLUS_3            2             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
  RAF1 MUTATED        0      2      4
  RAF1 WILD-TYPE     94    231     81
D134V12, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            2            231
  CLUS_3            4             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"

Clustering(135) Variable = PLXND1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLXND1 MUTATED        0      1      0      1
  PLXND1 WILD-TYPE      5      6      5      2
D135V1, multiclass
[1] "Remove cluster labels:" "PLXND1 MUTATED"        
clus
  PLXND1 MUTATED PLXND1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXND1 MUTATED        1      0      1
  PLXND1 WILD-TYPE      6      9      3
D135V2, multiclass
[1] "Remove cluster labels:" "PLXND1 MUTATED"        
clus
  PLXND1 MUTATED PLXND1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"PLXND1 WILD-TYPE" "PLXND1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLXND1 MUTATED        3      6      2      4
  PLXND1 WILD-TYPE     62    204     70    127
D135V3, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              6              204
  CLUS_3              2               70
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXND1 MUTATED        4      4      6
  PLXND1 WILD-TYPE    127    134    155
D135V4, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              4              134
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXND1 MUTATED        0      2      2
  PLXND1 WILD-TYPE     42     69     61
D135V5, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              2               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
  PLXND1 MUTATED        2      1      0      1      0
  PLXND1 WILD-TYPE     37     31     43     29     32
D135V6, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              1               31
  CLUS_3              0               43
  CLUS_4              1               29
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXND1 MUTATED        4      5      6
  PLXND1 WILD-TYPE    146    180    137
D135V7, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              4              146
  CLUS_2              5              180
  CLUS_3              6              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PLXND1 MUTATED        1      6      4      1      2      1      0
  PLXND1 WILD-TYPE     71    103     86     43     47     45     68
D135V8, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              6              103
  CLUS_3              4               86
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              1               45
  CLUS_7              0               68
[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
  PLXND1 MUTATED        3      8      4
  PLXND1 WILD-TYPE    172    203     86
D135V9, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              3              172
  CLUS_2              8              203
  CLUS_3              4               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
  PLXND1 MUTATED        3      7      1      4
  PLXND1 WILD-TYPE     67    179    130     85
D135V10, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              7              179
  CLUS_3              1              130
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PLXND1 MUTATED        4      6      3
  PLXND1 WILD-TYPE    137    176     86
D135V11, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              6              176
  CLUS_3              3               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
  PLXND1 MUTATED        2     10      1
  PLXND1 WILD-TYPE     92    223     84
D135V12, multiclass
        clus
vv       PLXND1 MUTATED PLXND1 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             10              223
  CLUS_3              1               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"

Clustering(136) Variable = OFD1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OFD1 MUTATED        0      0      0      0
  OFD1 WILD-TYPE      5      7      5      3
D136V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OFD1 MUTATED        0      0      0
  OFD1 WILD-TYPE      7      9      4
D136V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OFD1 MUTATED        2      5      6      2
  OFD1 WILD-TYPE     63    205     66    129
D136V3, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            5            205
  CLUS_3            6             66
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OFD1 MUTATED        2      6      5
  OFD1 WILD-TYPE    129    132    156
D136V4, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            6            132
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OFD1 MUTATED        1      2      1
  OFD1 WILD-TYPE     41     69     62
D136V5, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OFD1 MUTATED        0      0      2      1      1
  OFD1 WILD-TYPE     39     32     41     29     31
D136V6, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OFD1 MUTATED        2      7      6
  OFD1 WILD-TYPE    148    178    137
D136V7, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            7            178
  CLUS_3            6            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OFD1 MUTATED        2      2      5      2      1      3      0
  OFD1 WILD-TYPE     70    107     85     42     48     43     68
D136V8, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2             70
  CLUS_2            2            107
  CLUS_3            5             85
  CLUS_4            2             42
  CLUS_5            1             48
  CLUS_6            3             43
  CLUS_7            0             68
[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
  OFD1 MUTATED        2     11      2
  OFD1 WILD-TYPE    173    200     88
D136V9, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2            173
  CLUS_2           11            200
  CLUS_3            2             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
  OFD1 MUTATED        2      7      0      6
  OFD1 WILD-TYPE     68    179    131     83
D136V10, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            7            179
  CLUS_3            0            131
  CLUS_4            6             83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OFD1 MUTATED        2      5      5
  OFD1 WILD-TYPE    139    177     84
D136V11, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            5            177
  CLUS_3            5             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
  OFD1 MUTATED        2     10      0
  OFD1 WILD-TYPE     92    223     85
D136V12, multiclass
        clus
vv       OFD1 MUTATED OFD1 WILD-TYPE
  CLUS_1            2             92
  CLUS_2           10            223
  CLUS_3            0             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"

Clustering(137) Variable = APLF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APLF MUTATED        0      0      0      0
  APLF WILD-TYPE      5      7      5      3
D137V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APLF MUTATED        0      0      0
  APLF WILD-TYPE      7      9      4
D137V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APLF MUTATED        2      1      0      1
  APLF WILD-TYPE     63    209     72    130
D137V3, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            2             63
  CLUS_2            1            209
  CLUS_3            0             72
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APLF MUTATED        1      1      2
  APLF WILD-TYPE    130    137    159
D137V4, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            1            130
  CLUS_2            1            137
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APLF MUTATED        1      1      0
  APLF WILD-TYPE     41     70     63
D137V5, multiclass
[1] "Remove cluster labels:" "APLF MUTATED"          
clus
  APLF MUTATED APLF WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4418 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7552 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"APLF WILD-TYPE" "APLF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APLF MUTATED        0      1      0      0      1
  APLF WILD-TYPE     39     31     43     30     31
D137V6, multiclass
[1] "Remove cluster labels:" "APLF MUTATED"          
clus
  APLF MUTATED APLF WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4418 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7552 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" "APLF WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"APLF WILD-TYPE" "APLF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APLF MUTATED        2      0      2
  APLF WILD-TYPE    148    185    141
D137V7, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            2            148
  CLUS_2            0            185
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  APLF MUTATED        1      0      0      0      2      0      1
  APLF WILD-TYPE     71    109     90     44     47     46     67
D137V8, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            1             71
  CLUS_2            0            109
  CLUS_3            0             90
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            0             46
  CLUS_7            1             67
[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
  APLF MUTATED        1      3      0
  APLF WILD-TYPE    174    208     90
D137V9, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            1            174
  CLUS_2            3            208
  CLUS_3            0             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
  APLF MUTATED        0      1      2      1
  APLF WILD-TYPE     70    185    129     88
D137V10, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            185
  CLUS_3            2            129
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  APLF MUTATED        1      1      2
  APLF WILD-TYPE    140    181     87
D137V11, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            1            140
  CLUS_2            1            181
  CLUS_3            2             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
  APLF MUTATED        0      2      2
  APLF WILD-TYPE     94    231     83
D137V12, multiclass
        clus
vv       APLF MUTATED APLF WILD-TYPE
  CLUS_1            0             94
  CLUS_2            2            231
  CLUS_3            2             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"

Clustering(138) Variable = ADAMTS2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAMTS2 MUTATED        0      1      1      0
  ADAMTS2 WILD-TYPE      5      6      4      3
D138V1, multiclass
[1] "Remove cluster labels:" "ADAMTS2 MUTATED"       
clus
  ADAMTS2 MUTATED ADAMTS2 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1677        TCGA-67-3771 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        1      1      0
  ADAMTS2 WILD-TYPE      6      8      4
D138V2, multiclass
[1] "Remove cluster labels:" "ADAMTS2 MUTATED"       
clus
  ADAMTS2 MUTATED ADAMTS2 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1677        TCGA-67-3771 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"ADAMTS2 WILD-TYPE" "ADAMTS2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAMTS2 MUTATED        9     12      6     11
  ADAMTS2 WILD-TYPE     56    198     66    120
D138V3, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               9                56
  CLUS_2              12               198
  CLUS_3               6                66
  CLUS_4              11               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        3     12     20
  ADAMTS2 WILD-TYPE    128    126    141
D138V4, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               3               128
  CLUS_2              12               126
  CLUS_3              20               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        1      3      4
  ADAMTS2 WILD-TYPE     41     68     59
D138V5, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3                68
  CLUS_3               4                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 CLUS_4 CLUS_5
  ADAMTS2 MUTATED        0      1      6      0      1
  ADAMTS2 WILD-TYPE     39     31     37     30     31
D138V6, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               6                37
  CLUS_4               0                30
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        9     18     11
  ADAMTS2 WILD-TYPE    141    167    132
D138V7, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               9               141
  CLUS_2              18               167
  CLUS_3              11               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADAMTS2 MUTATED        5     10      7      4      6      3      3
  ADAMTS2 WILD-TYPE     67     99     83     40     43     43     65
D138V8, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               5                67
  CLUS_2              10                99
  CLUS_3               7                83
  CLUS_4               4                40
  CLUS_5               6                43
  CLUS_6               3                43
  CLUS_7               3                65
[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
  ADAMTS2 MUTATED        9     24      6
  ADAMTS2 WILD-TYPE    166    187     84
D138V9, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               9               166
  CLUS_2              24               187
  CLUS_3               6                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
  ADAMTS2 MUTATED        8     21      5      5
  ADAMTS2 WILD-TYPE     62    165    126     84
D138V10, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               8                62
  CLUS_2              21               165
  CLUS_3               5               126
  CLUS_4               5                84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        6     19      6
  ADAMTS2 WILD-TYPE    135    163     83
D138V11, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               6               135
  CLUS_2              19               163
  CLUS_3               6                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
  ADAMTS2 MUTATED        8     16      7
  ADAMTS2 WILD-TYPE     86    217     78
D138V12, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               8                86
  CLUS_2              16               217
  CLUS_3               7                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"

Clustering(139) Variable = CAPN11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAPN11 MUTATED        0      1      1      2
  CAPN11 WILD-TYPE      5      6      4      1
D139V1, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              0                5
  CLUS_2              1                6
  CLUS_3              1                4
  CLUS_4              2                1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPN11 MUTATED        1      1      2
  CAPN11 WILD-TYPE      6      8      2
D139V2, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              1                6
  CLUS_2              1                8
  CLUS_3              2                2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAPN11 MUTATED        2      3      2      5
  CAPN11 WILD-TYPE     63    207     70    126
D139V3, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPN11 MUTATED        2      3      4
  CAPN11 WILD-TYPE    129    135    157
D139V4, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              3              135
  CLUS_3              4              157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPN11 MUTATED        0      3      2
  CAPN11 WILD-TYPE     42     68     61
D139V5, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              2               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
  CAPN11 MUTATED        1      1      2      1      0
  CAPN11 WILD-TYPE     38     31     41     29     32
D139V6, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPN11 MUTATED        0      9      3
  CAPN11 WILD-TYPE    150    176    140
D139V7, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              9              176
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CAPN11 MUTATED        0      4      7      0      0      1      0
  CAPN11 WILD-TYPE     72    105     83     44     49     45     68
D139V8, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              4              105
  CLUS_3              7               83
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              0               68
[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
  CAPN11 MUTATED        2      9      1
  CAPN11 WILD-TYPE    173    202     89
D139V9, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              9              202
  CLUS_3              1               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
  CAPN11 MUTATED        1      4      1      6
  CAPN11 WILD-TYPE     69    182    130     83
D139V10, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              182
  CLUS_3              1              130
  CLUS_4              6               83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CAPN11 MUTATED        2      3      3
  CAPN11 WILD-TYPE    139    179     86
D139V11, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              3              179
  CLUS_3              3               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
  CAPN11 MUTATED        0      7      1
  CAPN11 WILD-TYPE     94    226     84
D139V12, multiclass
        clus
vv       CAPN11 MUTATED CAPN11 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              7              226
  CLUS_3              1               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"

Clustering(140) Variable = FLCN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLCN MUTATED        0      0      0      0
  FLCN WILD-TYPE      5      7      5      3
D140V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        0      0      0
  FLCN WILD-TYPE      7      9      4
D140V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLCN MUTATED        1      5      0      4
  FLCN WILD-TYPE     64    205     72    127
D140V3, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            1             64
  CLUS_2            5            205
  CLUS_3            0             72
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        1      3      5
  FLCN WILD-TYPE    130    135    156
D140V4, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        2      0      1
  FLCN WILD-TYPE     40     71     62
D140V5, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0             71
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLCN MUTATED        0      1      0      1      1
  FLCN WILD-TYPE     39     31     43     29     31
D140V6, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            0             43
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        2      4      4
  FLCN WILD-TYPE    148    181    139
D140V7, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2            148
  CLUS_2            4            181
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FLCN MUTATED        1      3      1      1      1      2      1
  FLCN WILD-TYPE     71    106     89     43     48     44     67
D140V8, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            1             89
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            1             67
[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
  FLCN MUTATED        5      4      1
  FLCN WILD-TYPE    170    207     89
D140V9, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            5            170
  CLUS_2            4            207
  CLUS_3            1             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
  FLCN MUTATED        2      3      4      1
  FLCN WILD-TYPE     68    183    127     88
D140V10, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            183
  CLUS_3            4            127
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        4      5      0
  FLCN WILD-TYPE    137    177     89
D140V11, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            4            137
  CLUS_2            5            177
  CLUS_3            0             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
  FLCN MUTATED        2      5      2
  FLCN WILD-TYPE     92    228     83
D140V12, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2             92
  CLUS_2            5            228
  CLUS_3            2             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"

Clustering(141) Variable = C2ORF53 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C2ORF53 MUTATED        0      0      0      0
  C2ORF53 WILD-TYPE      5      7      5      3
D141V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF53 MUTATED        0      0      0
  C2ORF53 WILD-TYPE      7      9      4
D141V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C2ORF53 MUTATED        1      2      4      6
  C2ORF53 WILD-TYPE     64    208     68    125
D141V3, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               2               208
  CLUS_3               4                68
  CLUS_4               6               125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF53 MUTATED        2      4      6
  C2ORF53 WILD-TYPE    129    134    155
D141V4, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               4               134
  CLUS_3               6               155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF53 MUTATED        0      1      2
  C2ORF53 WILD-TYPE     42     70     61
D141V5, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1                70
  CLUS_3               2                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
  C2ORF53 MUTATED        0      0      2      1      0
  C2ORF53 WILD-TYPE     39     32     41     29     32
D141V6, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               0                32
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF53 MUTATED        2      7      4
  C2ORF53 WILD-TYPE    148    178    139
D141V7, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               7               178
  CLUS_3               4               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C2ORF53 MUTATED        2      6      4      0      1      0      0
  C2ORF53 WILD-TYPE     70    103     86     44     48     46     68
D141V8, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               2                70
  CLUS_2               6               103
  CLUS_3               4                86
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               0                46
  CLUS_7               0                68
[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
  C2ORF53 MUTATED        3      9      1
  C2ORF53 WILD-TYPE    172    202     89
D141V9, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               3               172
  CLUS_2               9               202
  CLUS_3               1                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
  C2ORF53 MUTATED        0      4      2      7
  C2ORF53 WILD-TYPE     70    182    129     82
D141V10, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               182
  CLUS_3               2               129
  CLUS_4               7                82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C2ORF53 MUTATED        3      4      3
  C2ORF53 WILD-TYPE    138    178     86
D141V11, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               4               178
  CLUS_3               3                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
  C2ORF53 MUTATED        0      8      2
  C2ORF53 WILD-TYPE     94    225     83
D141V12, multiclass
        clus
vv       C2ORF53 MUTATED C2ORF53 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               8               225
  CLUS_3               2                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"

Clustering(142) Variable = C1ORF177 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF177 MUTATED        1      0      0      0
  C1ORF177 WILD-TYPE      4      7      5      3
D142V1, multiclass
[1] "Remove cluster labels:" "C1ORF177 MUTATED"      
clus
  C1ORF177 MUTATED C1ORF177 WILD-TYPE 
                 1                 19 
        TCGA-05-4249         TCGA-05-4250         TCGA-35-4122 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-35-4123         TCGA-44-2656         TCGA-44-2657 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3398 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-67-3773 
"C1ORF177 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF177 MUTATED        1      0      0
  C1ORF177 WILD-TYPE      6      9      4
D142V2, multiclass
[1] "Remove cluster labels:" "C1ORF177 MUTATED"      
clus
  C1ORF177 MUTATED C1ORF177 WILD-TYPE 
                 1                 19 
        TCGA-05-4249         TCGA-05-4250         TCGA-35-4122 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-35-4123         TCGA-44-2656         TCGA-44-2657 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3398 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-67-3773 
"C1ORF177 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF177 MUTATED        3      0      0      6
  C1ORF177 WILD-TYPE     62    210     72    125
D142V3, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                3                 62
  CLUS_2                0                210
  CLUS_3                0                 72
  CLUS_4                6                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF177 MUTATED        0      5      2
  C1ORF177 WILD-TYPE    131    133    159
D142V4, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                0                131
  CLUS_2                5                133
  CLUS_3                2                159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF177 MUTATED        1      0      1
  C1ORF177 WILD-TYPE     41     71     62
D142V5, multiclass
[1] "Remove cluster labels:" "C1ORF177 MUTATED"      
clus
  C1ORF177 MUTATED C1ORF177 WILD-TYPE 
                 2                174 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6744 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-6745         TCGA-49-6761         TCGA-49-6767 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5044         TCGA-50-5049         TCGA-50-5051 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5068         TCGA-50-5072         TCGA-50-5931 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5932         TCGA-50-5933         TCGA-50-5936 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5939         TCGA-50-5941         TCGA-50-5942 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5944         TCGA-50-6593         TCGA-50-6595 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-6597         TCGA-50-6673         TCGA-50-7109 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-53-7626         TCGA-53-7813         TCGA-55-1592 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-6543         TCGA-55-6712         TCGA-55-6970 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-6971         TCGA-55-6978         TCGA-55-6979 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-6981         TCGA-55-6982         TCGA-55-7573 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-7574         TCGA-55-7728         TCGA-55-7815 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-7911         TCGA-64-1676         TCGA-64-1677 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-64-1679         TCGA-64-1681         TCGA-64-5774 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-64-5778         TCGA-64-5781         TCGA-67-3771 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-67-6215         TCGA-67-6216         TCGA-67-6217 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-69-7760         TCGA-69-7761         TCGA-69-7763 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-69-7764         TCGA-69-7765         TCGA-71-6725 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-73-4658         TCGA-73-4659         TCGA-73-4675 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-73-4676         TCGA-73-7498         TCGA-73-7499 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-75-5122         TCGA-75-6203         TCGA-75-6205 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-75-6207         TCGA-75-6211         TCGA-75-6212 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-75-7027         TCGA-75-7030         TCGA-75-7031 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7143         TCGA-78-7145         TCGA-78-7147 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7148         TCGA-78-7149         TCGA-78-7150 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7152         TCGA-78-7153         TCGA-78-7154 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7155         TCGA-78-7156         TCGA-78-7158 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7159         TCGA-78-7160         TCGA-78-7161 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7162         TCGA-78-7163         TCGA-78-7166 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7167         TCGA-78-7535         TCGA-78-7536 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7537         TCGA-78-7539         TCGA-78-7540 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7542         TCGA-78-7633         TCGA-80-5607 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-80-5608         TCGA-86-6562         TCGA-86-6851 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-86-7713         TCGA-91-6828         TCGA-91-6829 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-95-7948         TCGA-97-7546         TCGA-97-7552 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-97-7553         TCGA-97-7554         TCGA-97-7937 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-97-7938         TCGA-97-7941         TCGA-99-7458 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF177 MUTATED        0      0      0      2      0
  C1ORF177 WILD-TYPE     39     32     43     28     32
D142V6, multiclass
[1] "Remove cluster labels:" "C1ORF177 MUTATED"      
clus
  C1ORF177 MUTATED C1ORF177 WILD-TYPE 
                 2                174 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6744 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-49-6745         TCGA-49-6761         TCGA-49-6767 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5044         TCGA-50-5049         TCGA-50-5051 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5068         TCGA-50-5072         TCGA-50-5931 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5932         TCGA-50-5933         TCGA-50-5936 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5939         TCGA-50-5941         TCGA-50-5942 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-5944         TCGA-50-6593         TCGA-50-6595 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-50-6597         TCGA-50-6673         TCGA-50-7109 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-53-7626         TCGA-53-7813         TCGA-55-1592 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-6543         TCGA-55-6712         TCGA-55-6970 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-6971         TCGA-55-6978         TCGA-55-6979 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-6981         TCGA-55-6982         TCGA-55-7573 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-7574         TCGA-55-7728         TCGA-55-7815 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-55-7911         TCGA-64-1676         TCGA-64-1677 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-64-1679         TCGA-64-1681         TCGA-64-5774 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-64-5778         TCGA-64-5781         TCGA-67-3771 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-67-6215         TCGA-67-6216         TCGA-67-6217 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-69-7760         TCGA-69-7761         TCGA-69-7763 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-69-7764         TCGA-69-7765         TCGA-71-6725 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-73-4658         TCGA-73-4659         TCGA-73-4675 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-73-4676         TCGA-73-7498         TCGA-73-7499 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-75-5122         TCGA-75-6203         TCGA-75-6205 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-75-6207         TCGA-75-6211         TCGA-75-6212 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-75-7027         TCGA-75-7030         TCGA-75-7031 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7143         TCGA-78-7145         TCGA-78-7147 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7148         TCGA-78-7149         TCGA-78-7150 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7152         TCGA-78-7153         TCGA-78-7154 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7155         TCGA-78-7156         TCGA-78-7158 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7159         TCGA-78-7160         TCGA-78-7161 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7162         TCGA-78-7163         TCGA-78-7166 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7167         TCGA-78-7535         TCGA-78-7536 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7537         TCGA-78-7539         TCGA-78-7540 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-78-7542         TCGA-78-7633         TCGA-80-5607 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-80-5608         TCGA-86-6562         TCGA-86-6851 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-86-7713         TCGA-91-6828         TCGA-91-6829 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-95-7948         TCGA-97-7546         TCGA-97-7552 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-97-7553         TCGA-97-7554         TCGA-97-7937 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
        TCGA-97-7938         TCGA-97-7941         TCGA-99-7458 
"C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" "C1ORF177 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF177 MUTATED        2      4      3
  C1ORF177 WILD-TYPE    148    181    140
D142V7, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                2                148
  CLUS_2                4                181
  CLUS_3                3                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C1ORF177 MUTATED        1      0      5      0      2      0      1
  C1ORF177 WILD-TYPE     71    109     85     44     47     46     67
D142V8, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                1                 71
  CLUS_2                0                109
  CLUS_3                5                 85
  CLUS_4                0                 44
  CLUS_5                2                 47
  CLUS_6                0                 46
  CLUS_7                1                 67
[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
  C1ORF177 MUTATED        2      6      1
  C1ORF177 WILD-TYPE    173    205     89
D142V9, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                2                173
  CLUS_2                6                205
  CLUS_3                1                 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
  C1ORF177 MUTATED        0      3      2      4
  C1ORF177 WILD-TYPE     70    183    129     85
D142V10, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                3                183
  CLUS_3                2                129
  CLUS_4                4                 85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF177 MUTATED        2      5      0
  C1ORF177 WILD-TYPE    139    177     89
D142V11, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                2                139
  CLUS_2                5                177
  CLUS_3                0                 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
  C1ORF177 MUTATED        0      7      0
  C1ORF177 WILD-TYPE     94    226     85
D142V12, multiclass
        clus
vv       C1ORF177 MUTATED C1ORF177 WILD-TYPE
  CLUS_1                0                 94
  CLUS_2                7                226
  CLUS_3                0                 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"

Clustering(143) Variable = STK19 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK19 MUTATED        0      0      0      0
  STK19 WILD-TYPE      5      7      5      3
D143V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      0      0
  STK19 WILD-TYPE      7      9      4
D143V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK19 MUTATED        1      2      0      2
  STK19 WILD-TYPE     64    208     72    129
D143V3, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        1      2      2
  STK19 WILD-TYPE    130    136    159
D143V4, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             2             136
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      0      0
  STK19 WILD-TYPE     42     71     63
D143V5, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK19 MUTATED        0      0      0      0      0
  STK19 WILD-TYPE     39     32     43     30     32
D143V6, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        2      3      0
  STK19 WILD-TYPE    148    182    143
D143V7, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             3             182
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STK19 MUTATED        1      1      1      0      0      1      1
  STK19 WILD-TYPE     71    108     89     44     49     45     67
D143V8, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  STK19 MUTATED        1      3      1
  STK19 WILD-TYPE    174    208     89
D143V9, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             3             208
  CLUS_3             1              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
  STK19 MUTATED        0      3      2      0
  STK19 WILD-TYPE     70    183    129     89
D143V10, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             183
  CLUS_3             2             129
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      5      0
  STK19 WILD-TYPE    141    177     89
D143V11, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             5             177
  CLUS_3             0              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
  STK19 MUTATED        1      4      0
  STK19 WILD-TYPE     93    229     85
D143V12, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             4             229
  CLUS_3             0              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"

Clustering(144) Variable = PKD2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD2 MUTATED        0      0      0      0
  PKD2 WILD-TYPE      5      7      5      3
D144V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PKD2 MUTATED        0      0      0
  PKD2 WILD-TYPE      7      9      4
D144V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD2 MUTATED        2      5      3      5
  PKD2 WILD-TYPE     63    205     69    126
D144V3, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            5            205
  CLUS_3            3             69
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      8
  PKD2 WILD-TYPE    130    132    153
D144V4, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            6            132
  CLUS_3            8            153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      3      2
  PKD2 WILD-TYPE     42     68     61
D144V5, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3             68
  CLUS_3            2             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
  PKD2 MUTATED        1      2      1      1      0
  PKD2 WILD-TYPE     38     30     42     29     32
D144V6, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            2             30
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PKD2 MUTATED        5      4      6
  PKD2 WILD-TYPE    145    181    137
D144V7, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            5            145
  CLUS_2            4            181
  CLUS_3            6            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PKD2 MUTATED        0      6      3      1      3      0      2
  PKD2 WILD-TYPE     72    103     87     43     46     46     66
D144V8, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            6            103
  CLUS_3            3             87
  CLUS_4            1             43
  CLUS_5            3             46
  CLUS_6            0             46
  CLUS_7            2             66
[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        4      7      4
  PKD2 WILD-TYPE    171    204     86
D144V9, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            4            171
  CLUS_2            7            204
  CLUS_3            4             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
  PKD2 MUTATED        1      8      4      2
  PKD2 WILD-TYPE     69    178    127     87
D144V10, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            8            178
  CLUS_3            4            127
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      6      4
  PKD2 WILD-TYPE    137    176     85
D144V11, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            6            176
  CLUS_3            4             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
  PKD2 MUTATED        2      9      3
  PKD2 WILD-TYPE     92    224     82
D144V12, multiclass
        clus
vv       PKD2 MUTATED PKD2 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            9            224
  CLUS_3            3             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"

Clustering(145) Variable = NOTCH4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH4 MUTATED        0      3      0      0
  NOTCH4 WILD-TYPE      5      4      5      3
D145V1, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              0                5
  CLUS_2              3                4
  CLUS_3              0                5
  CLUS_4              0                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
  NOTCH4 MUTATED        1      2      0
  NOTCH4 WILD-TYPE      6      7      4
D145V2, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              1                6
  CLUS_2              2                7
  CLUS_3              0                4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NOTCH4 MUTATED        5     12      8     18
  NOTCH4 WILD-TYPE     60    198     64    113
D145V3, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              5               60
  CLUS_2             12              198
  CLUS_3              8               64
  CLUS_4             18              113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH4 MUTATED        5     15     16
  NOTCH4 WILD-TYPE    126    123    145
D145V4, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              5              126
  CLUS_2             15              123
  CLUS_3             16              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH4 MUTATED        1      9      9
  NOTCH4 WILD-TYPE     41     62     54
D145V5, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              9               62
  CLUS_3              9               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 CLUS_5
  NOTCH4 MUTATED        3      3      6      5      2
  NOTCH4 WILD-TYPE     36     29     37     25     30
D145V6, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              3               29
  CLUS_3              6               37
  CLUS_4              5               25
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH4 MUTATED        9     23     11
  NOTCH4 WILD-TYPE    141    162    132
D145V7, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              9              141
  CLUS_2             23              162
  CLUS_3             11              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NOTCH4 MUTATED        5     13      8      1      6      6      4
  NOTCH4 WILD-TYPE     67     96     82     43     43     40     64
D145V8, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              5               67
  CLUS_2             13               96
  CLUS_3              8               82
  CLUS_4              1               43
  CLUS_5              6               43
  CLUS_6              6               40
  CLUS_7              4               64
[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
  NOTCH4 MUTATED        8     25      9
  NOTCH4 WILD-TYPE    167    186     81
D145V9, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              8              167
  CLUS_2             25              186
  CLUS_3              9               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
  NOTCH4 MUTATED        6     22      3     11
  NOTCH4 WILD-TYPE     64    164    128     78
D145V10, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              6               64
  CLUS_2             22              164
  CLUS_3              3              128
  CLUS_4             11               78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NOTCH4 MUTATED       11     11     11
  NOTCH4 WILD-TYPE    130    171     78
D145V11, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1             11              130
  CLUS_2             11              171
  CLUS_3             11               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
  NOTCH4 MUTATED        3     23      7
  NOTCH4 WILD-TYPE     91    210     78
D145V12, multiclass
        clus
vv       NOTCH4 MUTATED NOTCH4 WILD-TYPE
  CLUS_1              3               91
  CLUS_2             23              210
  CLUS_3              7               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"

Clustering(146) Variable = COL15A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL15A1 MUTATED        2      2      0      1
  COL15A1 WILD-TYPE      3      5      5      2
D146V1, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               2                 5
  CLUS_3               0                 5
  CLUS_4               1                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL15A1 MUTATED        1      2      2
  COL15A1 WILD-TYPE      6      7      2
D146V2, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               2                 7
  CLUS_3               2                 2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL15A1 MUTATED        5     10      8      8
  COL15A1 WILD-TYPE     60    200     64    123
D146V3, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               5                60
  CLUS_2              10               200
  CLUS_3               8                64
  CLUS_4               8               123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL15A1 MUTATED        6      7     13
  COL15A1 WILD-TYPE    125    131    148
D146V4, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               6               125
  CLUS_2               7               131
  CLUS_3              13               148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL15A1 MUTATED        3      6      3
  COL15A1 WILD-TYPE     39     65     60
D146V5, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               6                65
  CLUS_3               3                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
  COL15A1 MUTATED        4      1      2      1      4
  COL15A1 WILD-TYPE     35     31     41     29     28
D146V6, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               4                35
  CLUS_2               1                31
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               4                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL15A1 MUTATED        8     17      6
  COL15A1 WILD-TYPE    142    168    137
D146V7, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               8               142
  CLUS_2              17               168
  CLUS_3               6               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL15A1 MUTATED        5     12      7      0      2      3      2
  COL15A1 WILD-TYPE     67     97     83     44     47     43     66
D146V8, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               5                67
  CLUS_2              12                97
  CLUS_3               7                83
  CLUS_4               0                44
  CLUS_5               2                47
  CLUS_6               3                43
  CLUS_7               2                66
[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
  COL15A1 MUTATED        3     21      7
  COL15A1 WILD-TYPE    172    190     83
D146V9, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               3               172
  CLUS_2              21               190
  CLUS_3               7                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
  COL15A1 MUTATED        3     17      3      8
  COL15A1 WILD-TYPE     67    169    128     81
D146V10, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               3                67
  CLUS_2              17               169
  CLUS_3               3               128
  CLUS_4               8                81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL15A1 MUTATED        6      9      8
  COL15A1 WILD-TYPE    135    173     81
D146V11, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               6               135
  CLUS_2               9               173
  CLUS_3               8                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
  COL15A1 MUTATED        2     17      4
  COL15A1 WILD-TYPE     92    216     81
D146V12, multiclass
        clus
vv       COL15A1 MUTATED COL15A1 WILD-TYPE
  CLUS_1               2                92
  CLUS_2              17               216
  CLUS_3               4                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"

Clustering(147) Variable = SOS2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOS2 MUTATED        0      0      0      0
  SOS2 WILD-TYPE      5      7      5      3
D147V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS2 MUTATED        0      0      0
  SOS2 WILD-TYPE      7      9      4
D147V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOS2 MUTATED        1      6      4      2
  SOS2 WILD-TYPE     64    204     68    129
D147V3, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            6            204
  CLUS_3            4             68
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS2 MUTATED        2      3      6
  SOS2 WILD-TYPE    129    135    155
D147V4, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            3            135
  CLUS_3            6            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS2 MUTATED        0      2      3
  SOS2 WILD-TYPE     42     69     60
D147V5, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2             69
  CLUS_3            3             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
  SOS2 MUTATED        2      0      1      2      0
  SOS2 WILD-TYPE     37     32     42     28     32
D147V6, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS2 MUTATED        3      9      1
  SOS2 WILD-TYPE    147    176    142
D147V7, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            9            176
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SOS2 MUTATED        1      4      3      0      0      3      2
  SOS2 WILD-TYPE     71    105     87     44     49     43     66
D147V8, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            4            105
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            3             43
  CLUS_7            2             66
[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
  SOS2 MUTATED        5      8      0
  SOS2 WILD-TYPE    170    203     90
D147V9, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            5            170
  CLUS_2            8            203
  CLUS_3            0             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
  SOS2 MUTATED        0      7      2      4
  SOS2 WILD-TYPE     70    179    129     85
D147V10, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            7            179
  CLUS_3            2            129
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS2 MUTATED        4      5      2
  SOS2 WILD-TYPE    137    177     87
D147V11, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            5            177
  CLUS_3            2             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
  SOS2 MUTATED        1      9      1
  SOS2 WILD-TYPE     93    224     84
D147V12, multiclass
        clus
vv       SOS2 MUTATED SOS2 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            9            224
  CLUS_3            1             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"

Clustering(148) Variable = SETDB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETDB1 MUTATED        0      0      0      1
  SETDB1 WILD-TYPE      5      7      5      2
D148V1, multiclass
[1] "Remove cluster labels:" "SETDB1 MUTATED"        
clus
  SETDB1 MUTATED SETDB1 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SETDB1 MUTATED        0      0      1
  SETDB1 WILD-TYPE      7      9      3
D148V2, multiclass
[1] "Remove cluster labels:" "SETDB1 MUTATED"        
clus
  SETDB1 MUTATED SETDB1 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETDB1 MUTATED        2      2      4      2
  SETDB1 WILD-TYPE     63    208     68    129
D148V3, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              2              208
  CLUS_3              4               68
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SETDB1 MUTATED        2      1      5
  SETDB1 WILD-TYPE    129    137    156
D148V4, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              1              137
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SETDB1 MUTATED        0      1      1
  SETDB1 WILD-TYPE     42     70     62
D148V5, multiclass
[1] "Remove cluster labels:" "SETDB1 MUTATED"        
clus
  SETDB1 MUTATED SETDB1 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-6215       TCGA-67-6216 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6851 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETDB1 MUTATED        1      1      0      0      0
  SETDB1 WILD-TYPE     38     31     43     30     32
D148V6, multiclass
[1] "Remove cluster labels:" "SETDB1 MUTATED"        
clus
  SETDB1 MUTATED SETDB1 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-6215       TCGA-67-6216 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6851 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"SETDB1 WILD-TYPE" "SETDB1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SETDB1 MUTATED        1      7      1
  SETDB1 WILD-TYPE    149    178    142
D148V7, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              7              178
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SETDB1 MUTATED        1      5      2      0      0      1      0
  SETDB1 WILD-TYPE     71    104     88     44     49     45     68
D148V8, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              5              104
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              0               68
[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
  SETDB1 MUTATED        4      3      2
  SETDB1 WILD-TYPE    171    208     88
D148V9, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              3              208
  CLUS_3              2               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
  SETDB1 MUTATED        0      3      3      3
  SETDB1 WILD-TYPE     70    183    128     86
D148V10, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              183
  CLUS_3              3              128
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SETDB1 MUTATED        2      3      3
  SETDB1 WILD-TYPE    139    179     86
D148V11, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              3              179
  CLUS_3              3               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
  SETDB1 MUTATED        1      5      2
  SETDB1 WILD-TYPE     93    228     83
D148V12, multiclass
        clus
vv       SETDB1 MUTATED SETDB1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              5              228
  CLUS_3              2               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"

Clustering(149) Variable = ANTXR1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANTXR1 MUTATED        0      0      0      0
  ANTXR1 WILD-TYPE      5      7      5      3
D149V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        0      0      0
  ANTXR1 WILD-TYPE      7      9      4
D149V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANTXR1 MUTATED        4      8      2      5
  ANTXR1 WILD-TYPE     61    202     70    126
D149V3, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              8              202
  CLUS_3              2               70
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        5      4      8
  ANTXR1 WILD-TYPE    126    134    153
D149V4, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              5              126
  CLUS_2              4              134
  CLUS_3              8              153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        2      1      2
  ANTXR1 WILD-TYPE     40     70     61
D149V5, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1               70
  CLUS_3              2               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
  ANTXR1 MUTATED        1      0      1      0      3
  ANTXR1 WILD-TYPE     38     32     42     30     29
D149V6, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              3               29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        7      8      4
  ANTXR1 WILD-TYPE    143    177    139
D149V7, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              7              143
  CLUS_2              8              177
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ANTXR1 MUTATED        5      5      2      1      1      1      4
  ANTXR1 WILD-TYPE     67    104     88     43     48     45     64
D149V8, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              5               67
  CLUS_2              5              104
  CLUS_3              2               88
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              1               45
  CLUS_7              4               64
[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
  ANTXR1 MUTATED        9      7      2
  ANTXR1 WILD-TYPE    166    204     88
D149V9, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              9              166
  CLUS_2              7              204
  CLUS_3              2               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
  ANTXR1 MUTATED        4      7      5      2
  ANTXR1 WILD-TYPE     66    179    126     87
D149V10, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              7              179
  CLUS_3              5              126
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        6      8      2
  ANTXR1 WILD-TYPE    135    174     87
D149V11, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              6              135
  CLUS_2              8              174
  CLUS_3              2               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
  ANTXR1 MUTATED        4      7      5
  ANTXR1 WILD-TYPE     90    226     80
D149V12, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              4               90
  CLUS_2              7              226
  CLUS_3              5               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"

Clustering(150) Variable = SLC38A8 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC38A8 MUTATED        0      0      0      1
  SLC38A8 WILD-TYPE      5      7      5      2
D150V1, multiclass
[1] "Remove cluster labels:" "SLC38A8 MUTATED"       
clus
  SLC38A8 MUTATED SLC38A8 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-55-1595        TCGA-64-1676 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-64-1677        TCGA-67-3772        TCGA-67-3773 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A8 MUTATED        0      0      1
  SLC38A8 WILD-TYPE      7      9      3
D150V2, multiclass
[1] "Remove cluster labels:" "SLC38A8 MUTATED"       
clus
  SLC38A8 MUTATED SLC38A8 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-55-1595        TCGA-64-1676 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
       TCGA-64-1677        TCGA-67-3772        TCGA-67-3773 
"SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" "SLC38A8 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC38A8 MUTATED        2      2      1      4
  SLC38A8 WILD-TYPE     63    208     71    127
D150V3, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               2               208
  CLUS_3               1                71
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A8 MUTATED        0      5      3
  SLC38A8 WILD-TYPE    131    133    158
D150V4, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               5               133
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A8 MUTATED        0      1      5
  SLC38A8 WILD-TYPE     42     70     58
D150V5, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               1                70
  CLUS_3               5                58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC38A8 MUTATED        1      2      1      2      0
  SLC38A8 WILD-TYPE     38     30     42     28     32
D150V6, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               2                30
  CLUS_3               1                42
  CLUS_4               2                28
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A8 MUTATED        1      2      6
  SLC38A8 WILD-TYPE    149    183    137
D150V7, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               2               183
  CLUS_3               6               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC38A8 MUTATED        0      0      4      1      2      1      1
  SLC38A8 WILD-TYPE     72    109     86     43     47     45     67
D150V8, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               0               109
  CLUS_3               4                86
  CLUS_4               1                43
  CLUS_5               2                47
  CLUS_6               1                45
  CLUS_7               1                67
[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
  SLC38A8 MUTATED        2      5      2
  SLC38A8 WILD-TYPE    173    206     88
D150V9, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               2               173
  CLUS_2               5               206
  CLUS_3               2                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
  SLC38A8 MUTATED        1      4      1      3
  SLC38A8 WILD-TYPE     69    182    130     86
D150V10, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               4               182
  CLUS_3               1               130
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC38A8 MUTATED        4      2      2
  SLC38A8 WILD-TYPE    137    180     87
D150V11, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               4               137
  CLUS_2               2               180
  CLUS_3               2                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
  SLC38A8 MUTATED        0      6      2
  SLC38A8 WILD-TYPE     94    227     83
D150V12, multiclass
        clus
vv       SLC38A8 MUTATED SLC38A8 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               6               227
  CLUS_3               2                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"

Clustering(151) Variable = COL3A1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL3A1 MUTATED        0      2      1      1
  COL3A1 WILD-TYPE      5      5      4      2
D151V1, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              0                5
  CLUS_2              2                5
  CLUS_3              1                4
  CLUS_4              1                2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL3A1 MUTATED        2      1      1
  COL3A1 WILD-TYPE      5      8      3
D151V2, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              2                5
  CLUS_2              1                8
  CLUS_3              1                3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL3A1 MUTATED        7     18      8     20
  COL3A1 WILD-TYPE     58    192     64    111
D151V3, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              7               58
  CLUS_2             18              192
  CLUS_3              8               64
  CLUS_4             20              111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL3A1 MUTATED       12     18     17
  COL3A1 WILD-TYPE    119    120    144
D151V4, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1             12              119
  CLUS_2             18              120
  CLUS_3             17              144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL3A1 MUTATED        2      7      8
  COL3A1 WILD-TYPE     40     64     55
D151V5, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              7               64
  CLUS_3              8               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 CLUS_4 CLUS_5
  COL3A1 MUTATED        1      3      7      5      1
  COL3A1 WILD-TYPE     38     29     36     25     31
D151V6, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              3               29
  CLUS_3              7               36
  CLUS_4              5               25
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL3A1 MUTATED        8     29     16
  COL3A1 WILD-TYPE    142    156    127
D151V7, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              8              142
  CLUS_2             29              156
  CLUS_3             16              127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL3A1 MUTATED        4     13     13      3      7      8      5
  COL3A1 WILD-TYPE     68     96     77     41     42     38     63
D151V8, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              4               68
  CLUS_2             13               96
  CLUS_3             13               77
  CLUS_4              3               41
  CLUS_5              7               42
  CLUS_6              8               38
  CLUS_7              5               63
[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
  COL3A1 MUTATED        8     33     12
  COL3A1 WILD-TYPE    167    178     78
D151V9, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              8              167
  CLUS_2             33              178
  CLUS_3             12               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
  COL3A1 MUTATED        4     24      8     17
  COL3A1 WILD-TYPE     66    162    123     72
D151V10, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2             24              162
  CLUS_3              8              123
  CLUS_4             17               72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL3A1 MUTATED       12     20     13
  COL3A1 WILD-TYPE    129    162     76
D151V11, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1             12              129
  CLUS_2             20              162
  CLUS_3             13               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
  COL3A1 MUTATED        4     36      5
  COL3A1 WILD-TYPE     90    197     80
D151V12, multiclass
        clus
vv       COL3A1 MUTATED COL3A1 WILD-TYPE
  CLUS_1              4               90
  CLUS_2             36              197
  CLUS_3              5               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"

Clustering(152) Variable = RBBP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBBP6 MUTATED        0      2      0      0
  RBBP6 WILD-TYPE      5      5      5      3
D152V1, multiclass
[1] "Remove cluster labels:" "RBBP6 MUTATED"         
clus
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP6 MUTATED        1      1      0
  RBBP6 WILD-TYPE      6      8      4
D152V2, multiclass
[1] "Remove cluster labels:" "RBBP6 MUTATED"         
clus
  RBBP6 MUTATED RBBP6 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"RBBP6 WILD-TYPE" "RBBP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBBP6 MUTATED        1      6      5      5
  RBBP6 WILD-TYPE     64    204     67    126
D152V3, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             6             204
  CLUS_3             5              67
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      7      4
  RBBP6 WILD-TYPE    128    131    157
D152V4, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             7             131
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        2      4      0
  RBBP6 WILD-TYPE     40     67     63
D152V5, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             4              67
  CLUS_3             0              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 CLUS_4 CLUS_5
  RBBP6 MUTATED        3      1      1      0      1
  RBBP6 WILD-TYPE     36     31     42     30     31
D152V6, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBBP6 MUTATED        2     10      5
  RBBP6 WILD-TYPE    148    175    138
D152V7, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             2             148
  CLUS_2            10             175
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RBBP6 MUTATED        0      7      3      1      2      3      1
  RBBP6 WILD-TYPE     72    102     87     43     47     43     67
D152V8, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             7             102
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             2              47
  CLUS_6             3              43
  CLUS_7             1              67
[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        4     11      2
  RBBP6 WILD-TYPE    171    200     88
D152V9, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             4             171
  CLUS_2            11             200
  CLUS_3             2              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
  RBBP6 MUTATED        2      6      2      7
  RBBP6 WILD-TYPE     68    180    129     82
D152V10, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             180
  CLUS_3             2             129
  CLUS_4             7              82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      7      1
  RBBP6 WILD-TYPE    137    175     88
D152V11, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             7             175
  CLUS_3             1              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
  RBBP6 MUTATED        1     10      1
  RBBP6 WILD-TYPE     93    223     84
D152V12, multiclass
        clus
vv       RBBP6 MUTATED RBBP6 WILD-TYPE
  CLUS_1             1              93
  CLUS_2            10             223
  CLUS_3             1              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"

Clustering(153) Variable = RFX1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RFX1 MUTATED        0      1      0      1
  RFX1 WILD-TYPE      5      6      5      2
D153V1, multiclass
[1] "Remove cluster labels:" "RFX1 MUTATED"          
clus
  RFX1 MUTATED RFX1 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RFX1 MUTATED        0      1      1
  RFX1 WILD-TYPE      7      8      3
D153V2, multiclass
[1] "Remove cluster labels:" "RFX1 MUTATED"          
clus
  RFX1 MUTATED RFX1 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RFX1 MUTATED        2      5      1      1
  RFX1 WILD-TYPE     63    205     71    130
D153V3, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            5            205
  CLUS_3            1             71
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RFX1 MUTATED        1      2      5
  RFX1 WILD-TYPE    130    136    156
D153V4, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            2            136
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RFX1 MUTATED        0      0      2
  RFX1 WILD-TYPE     42     71     61
D153V5, multiclass
[1] "Remove cluster labels:" "RFX1 MUTATED"          
clus
  RFX1 MUTATED RFX1 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RFX1 MUTATED        1      1      0      0      0
  RFX1 WILD-TYPE     38     31     43     30     32
D153V6, multiclass
[1] "Remove cluster labels:" "RFX1 MUTATED"          
clus
  RFX1 MUTATED RFX1 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RFX1 WILD-TYPE" "RFX1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RFX1 MUTATED        3      2      3
  RFX1 WILD-TYPE    147    183    140
D153V7, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            2            183
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RFX1 MUTATED        1      2      1      0      2      1      1
  RFX1 WILD-TYPE     71    107     89     44     47     45     67
D153V8, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            2            107
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            1             67
[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
  RFX1 MUTATED        0      7      2
  RFX1 WILD-TYPE    175    204     88
D153V9, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            0            175
  CLUS_2            7            204
  CLUS_3            2             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
  RFX1 MUTATED        0      7      0      2
  RFX1 WILD-TYPE     70    179    131     87
D153V10, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            7            179
  CLUS_3            0            131
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RFX1 MUTATED        1      3      2
  RFX1 WILD-TYPE    140    179     87
D153V11, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            2             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
  RFX1 MUTATED        0      5      1
  RFX1 WILD-TYPE     94    228     84
D153V12, multiclass
        clus
vv       RFX1 MUTATED RFX1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            5            228
  CLUS_3            1             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"

Clustering(154) Variable = PRB2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRB2 MUTATED        0      0      0      0
  PRB2 WILD-TYPE      5      7      5      3
D154V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB2 MUTATED        0      0      0
  PRB2 WILD-TYPE      7      9      4
D154V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRB2 MUTATED        1      5      4      3
  PRB2 WILD-TYPE     64    205     68    128
D154V3, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            5            205
  CLUS_3            4             68
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB2 MUTATED        4      4      5
  PRB2 WILD-TYPE    127    134    156
D154V4, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            4            127
  CLUS_2            4            134
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB2 MUTATED        0      1      0
  PRB2 WILD-TYPE     42     70     63
D154V5, multiclass
[1] "Remove cluster labels:" "PRB2 MUTATED"          
clus
  PRB2 MUTATED PRB2 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-64-1676     TCGA-64-1677 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRB2 MUTATED        1      0      0      0      0
  PRB2 WILD-TYPE     38     32     43     30     32
D154V6, multiclass
[1] "Remove cluster labels:" "PRB2 MUTATED"          
clus
  PRB2 MUTATED PRB2 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-64-1676     TCGA-64-1677 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"PRB2 WILD-TYPE" "PRB2 WILD-TYPE" "PRB2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB2 MUTATED        3      6      3
  PRB2 WILD-TYPE    147    179    140
D154V7, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            6            179
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PRB2 MUTATED        0      2      1      1      1      2      5
  PRB2 WILD-TYPE     72    107     89     43     48     44     63
D154V8, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            1             89
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            5             63
[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
  PRB2 MUTATED        5      7      1
  PRB2 WILD-TYPE    170    204     89
D154V9, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            5            170
  CLUS_2            7            204
  CLUS_3            1             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
  PRB2 MUTATED        2      3      5      3
  PRB2 WILD-TYPE     68    183    126     86
D154V10, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            183
  CLUS_3            5            126
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PRB2 MUTATED        5      7      1
  PRB2 WILD-TYPE    136    175     88
D154V11, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            5            136
  CLUS_2            7            175
  CLUS_3            1             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
  PRB2 MUTATED        5      7      1
  PRB2 WILD-TYPE     89    226     84
D154V12, multiclass
        clus
vv       PRB2 MUTATED PRB2 WILD-TYPE
  CLUS_1            5             89
  CLUS_2            7            226
  CLUS_3            1             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"

Clustering(155) Variable = COL25A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL25A1 MUTATED        2      2      0      0
  COL25A1 WILD-TYPE      3      5      5      3
D155V1, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               2                 5
  CLUS_3               0                 5
  CLUS_4               0                 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
  COL25A1 MUTATED        1      2      1
  COL25A1 WILD-TYPE      6      7      3
D155V2, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               2                 7
  CLUS_3               1                 3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL25A1 MUTATED        2      9      8     13
  COL25A1 WILD-TYPE     63    201     64    118
D155V3, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               2                63
  CLUS_2               9               201
  CLUS_3               8                64
  CLUS_4              13               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL25A1 MUTATED        9     10     10
  COL25A1 WILD-TYPE    122    128    151
D155V4, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               9               122
  CLUS_2              10               128
  CLUS_3              10               151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL25A1 MUTATED        1      5      3
  COL25A1 WILD-TYPE     41     66     60
D155V5, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               5                66
  CLUS_3               3                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
  COL25A1 MUTATED        2      0      4      1      2
  COL25A1 WILD-TYPE     37     32     39     29     30
D155V6, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               2                37
  CLUS_2               0                32
  CLUS_3               4                39
  CLUS_4               1                29
  CLUS_5               2                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL25A1 MUTATED        7     16      9
  COL25A1 WILD-TYPE    143    169    134
D155V7, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               7               143
  CLUS_2              16               169
  CLUS_3               9               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL25A1 MUTATED        1     11      7      0      3      4      6
  COL25A1 WILD-TYPE     71     98     83     44     46     42     62
D155V8, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               1                71
  CLUS_2              11                98
  CLUS_3               7                83
  CLUS_4               0                44
  CLUS_5               3                46
  CLUS_6               4                42
  CLUS_7               6                62
[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
  COL25A1 MUTATED       10     18      4
  COL25A1 WILD-TYPE    165    193     86
D155V9, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1              10               165
  CLUS_2              18               193
  CLUS_3               4                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
  COL25A1 MUTATED        7     12      4      9
  COL25A1 WILD-TYPE     63    174    127     80
D155V10, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               7                63
  CLUS_2              12               174
  CLUS_3               4               127
  CLUS_4               9                80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL25A1 MUTATED        9     11      7
  COL25A1 WILD-TYPE    132    171     82
D155V11, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               9               132
  CLUS_2              11               171
  CLUS_3               7                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
  COL25A1 MUTATED        2     20      5
  COL25A1 WILD-TYPE     92    213     80
D155V12, multiclass
        clus
vv       COL25A1 MUTATED COL25A1 WILD-TYPE
  CLUS_1               2                92
  CLUS_2              20               213
  CLUS_3               5                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"

Clustering(156) Variable = PPP2R5B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R5B MUTATED        0      0      0      0
  PPP2R5B WILD-TYPE      5      7      5      3
D156V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5B MUTATED        0      0      0
  PPP2R5B WILD-TYPE      7      9      4
D156V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R5B MUTATED        0      4      1      2
  PPP2R5B WILD-TYPE     65    206     71    129
D156V3, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               0                65
  CLUS_2               4               206
  CLUS_3               1                71
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5B MUTATED        2      3      1
  PPP2R5B WILD-TYPE    129    135    160
D156V4, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               2               129
  CLUS_2               3               135
  CLUS_3               1               160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5B MUTATED        1      1      2
  PPP2R5B WILD-TYPE     41     70     61
D156V5, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1                70
  CLUS_3               2                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
  PPP2R5B MUTATED        0      1      2      1      0
  PPP2R5B WILD-TYPE     39     31     41     29     32
D156V6, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5B MUTATED        2      3      2
  PPP2R5B WILD-TYPE    148    182    141
D156V7, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               2               148
  CLUS_2               3               182
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PPP2R5B MUTATED        2      0      3      1      0      0      1
  PPP2R5B WILD-TYPE     70    109     87     43     49     46     67
D156V8, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               2                70
  CLUS_2               0               109
  CLUS_3               3                87
  CLUS_4               1                43
  CLUS_5               0                49
  CLUS_6               0                46
  CLUS_7               1                67
[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
  PPP2R5B MUTATED        3      3      1
  PPP2R5B WILD-TYPE    172    208     89
D156V9, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               3               172
  CLUS_2               3               208
  CLUS_3               1                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
  PPP2R5B MUTATED        2      1      2      2
  PPP2R5B WILD-TYPE     68    185    129     87
D156V10, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1               185
  CLUS_3               2               129
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R5B MUTATED        4      2      0
  PPP2R5B WILD-TYPE    137    180     89
D156V11, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               4               137
  CLUS_2               2               180
  CLUS_3               0                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
  PPP2R5B MUTATED        1      2      3
  PPP2R5B WILD-TYPE     93    231     82
D156V12, multiclass
        clus
vv       PPP2R5B MUTATED PPP2R5B WILD-TYPE
  CLUS_1               1                93
  CLUS_2               2               231
  CLUS_3               3                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"

Clustering(157) Variable = DZIP1L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DZIP1L MUTATED        0      0      0      0
  DZIP1L WILD-TYPE      5      7      5      3
D157V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DZIP1L MUTATED        0      0      0
  DZIP1L WILD-TYPE      7      9      4
D157V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DZIP1L MUTATED        3      3      1      4
  DZIP1L WILD-TYPE     62    207     71    127
D157V3, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              3               62
  CLUS_2              3              207
  CLUS_3              1               71
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DZIP1L MUTATED        2      4      5
  DZIP1L WILD-TYPE    129    134    156
D157V4, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              2              129
  CLUS_2              4              134
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DZIP1L MUTATED        0      2      1
  DZIP1L WILD-TYPE     42     69     62
D157V5, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DZIP1L MUTATED        0      0      2      1      0
  DZIP1L WILD-TYPE     39     32     41     29     32
D157V6, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              0               39
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DZIP1L MUTATED        1      5      5
  DZIP1L WILD-TYPE    149    180    138
D157V7, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              1              149
  CLUS_2              5              180
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DZIP1L MUTATED        1      2      2      0      3      2      1
  DZIP1L WILD-TYPE     71    107     88     44     46     44     67
D157V8, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              1               71
  CLUS_2              2              107
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              3               46
  CLUS_6              2               44
  CLUS_7              1               67
[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
  DZIP1L MUTATED        1      9      1
  DZIP1L WILD-TYPE    174    202     89
D157V9, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              1              174
  CLUS_2              9              202
  CLUS_3              1               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
  DZIP1L MUTATED        1      6      0      4
  DZIP1L WILD-TYPE     69    180    131     85
D157V10, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              180
  CLUS_3              0              131
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DZIP1L MUTATED        1      6      3
  DZIP1L WILD-TYPE    140    176     86
D157V11, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              1              140
  CLUS_2              6              176
  CLUS_3              3               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
  DZIP1L MUTATED        1      9      0
  DZIP1L WILD-TYPE     93    224     85
D157V12, multiclass
        clus
vv       DZIP1L MUTATED DZIP1L WILD-TYPE
  CLUS_1              1               93
  CLUS_2              9              224
  CLUS_3              0               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"

Clustering(158) Variable = RLTPR MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RLTPR MUTATED        0      2      0      0
  RLTPR WILD-TYPE      5      5      5      3
D158V1, multiclass
[1] "Remove cluster labels:" "RLTPR MUTATED"         
clus
  RLTPR MUTATED RLTPR WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RLTPR MUTATED        1      1      0
  RLTPR WILD-TYPE      6      8      4
D158V2, multiclass
[1] "Remove cluster labels:" "RLTPR MUTATED"         
clus
  RLTPR MUTATED RLTPR WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"RLTPR WILD-TYPE" "RLTPR WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RLTPR MUTATED        0      8      2      5
  RLTPR WILD-TYPE     65    202     70    126
D158V3, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             0              65
  CLUS_2             8             202
  CLUS_3             2              70
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RLTPR MUTATED        4      4      6
  RLTPR WILD-TYPE    127    134    155
D158V4, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             4             127
  CLUS_2             4             134
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RLTPR MUTATED        1      3      0
  RLTPR WILD-TYPE     41     68     63
D158V5, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             0              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 CLUS_4 CLUS_5
  RLTPR MUTATED        3      0      0      0      1
  RLTPR WILD-TYPE     36     32     43     30     31
D158V6, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             3              36
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RLTPR MUTATED        5      8      2
  RLTPR WILD-TYPE    145    177    141
D158V7, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             5             145
  CLUS_2             8             177
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RLTPR MUTATED        2      8      0      0      0      4      1
  RLTPR WILD-TYPE     70    101     90     44     49     42     67
D158V8, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             2              70
  CLUS_2             8             101
  CLUS_3             0              90
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             4              42
  CLUS_7             1              67
[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
  RLTPR MUTATED        4     10      1
  RLTPR WILD-TYPE    171    201     89
D158V9, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             4             171
  CLUS_2            10             201
  CLUS_3             1              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
  RLTPR MUTATED        4      8      1      2
  RLTPR WILD-TYPE     66    178    130     87
D158V10, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             4              66
  CLUS_2             8             178
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RLTPR MUTATED        4      6      2
  RLTPR WILD-TYPE    137    176     87
D158V11, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             4             137
  CLUS_2             6             176
  CLUS_3             2              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
  RLTPR MUTATED        1      9      2
  RLTPR WILD-TYPE     93    224     83
D158V12, multiclass
        clus
vv       RLTPR MUTATED RLTPR WILD-TYPE
  CLUS_1             1              93
  CLUS_2             9             224
  CLUS_3             2              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"

Clustering(159) Variable = CD40LG MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD40LG MUTATED        0      1      0      0
  CD40LG WILD-TYPE      5      6      5      3
D159V1, multiclass
[1] "Remove cluster labels:" "CD40LG MUTATED"        
clus
  CD40LG MUTATED CD40LG WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1677 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD40LG MUTATED        0      1      0
  CD40LG WILD-TYPE      7      8      4
D159V2, multiclass
[1] "Remove cluster labels:" "CD40LG MUTATED"        
clus
  CD40LG MUTATED CD40LG WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1677 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"CD40LG WILD-TYPE" "CD40LG WILD-TYPE" "CD40LG WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD40LG MUTATED        0      2      1      3
  CD40LG WILD-TYPE     65    208     71    128
D159V3, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              0               65
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD40LG MUTATED        2      2      1
  CD40LG WILD-TYPE    129    136    160
D159V4, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              2              129
  CLUS_2              2              136
  CLUS_3              1              160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD40LG MUTATED        1      1      1
  CD40LG WILD-TYPE     41     70     62
D159V5, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1               70
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD40LG MUTATED        1      0      1      0      1
  CD40LG WILD-TYPE     38     32     42     30     31
D159V6, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD40LG MUTATED        4      1      1
  CD40LG WILD-TYPE    146    184    142
D159V7, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              4              146
  CLUS_2              1              184
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CD40LG MUTATED        2      2      1      0      0      0      1
  CD40LG WILD-TYPE     70    107     89     44     49     46     67
D159V8, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              2               70
  CLUS_2              2              107
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              1               67
[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
  CD40LG MUTATED        2      2      2
  CD40LG WILD-TYPE    173    209     88
D159V9, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              2              173
  CLUS_2              2              209
  CLUS_3              2               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
  CD40LG MUTATED        1      3      2      0
  CD40LG WILD-TYPE     69    183    129     89
D159V10, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              183
  CLUS_3              2              129
  CLUS_4              0               89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD40LG MUTATED        2      1      1
  CD40LG WILD-TYPE    139    181     88
D159V11, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              2              139
  CLUS_2              1              181
  CLUS_3              1               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
  CD40LG MUTATED        0      2      2
  CD40LG WILD-TYPE     94    231     83
D159V12, multiclass
        clus
vv       CD40LG MUTATED CD40LG WILD-TYPE
  CLUS_1              0               94
  CLUS_2              2              231
  CLUS_3              2               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"

Clustering(160) Variable = LGALS2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LGALS2 MUTATED        0      0      0      1
  LGALS2 WILD-TYPE      5      7      5      2
D160V1, multiclass
[1] "Remove cluster labels:" "LGALS2 MUTATED"        
clus
  LGALS2 MUTATED LGALS2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS2 MUTATED        0      0      1
  LGALS2 WILD-TYPE      7      9      3
D160V2, multiclass
[1] "Remove cluster labels:" "LGALS2 MUTATED"        
clus
  LGALS2 MUTATED LGALS2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LGALS2 MUTATED        1      2      1      1
  LGALS2 WILD-TYPE     64    208     71    130
D160V3, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS2 MUTATED        1      1      2
  LGALS2 WILD-TYPE    130    137    159
D160V4, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              1              137
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS2 MUTATED        1      1      0
  LGALS2 WILD-TYPE     41     70     63
D160V5, multiclass
[1] "Remove cluster labels:" "LGALS2 MUTATED"        
clus
  LGALS2 MUTATED LGALS2 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7159       TCGA-78-7160 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LGALS2 MUTATED        1      0      0      0      1
  LGALS2 WILD-TYPE     38     32     43     30     31
D160V6, multiclass
[1] "Remove cluster labels:" "LGALS2 MUTATED"        
clus
  LGALS2 MUTATED LGALS2 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7159       TCGA-78-7160 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"LGALS2 WILD-TYPE" "LGALS2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS2 MUTATED        1      2      2
  LGALS2 WILD-TYPE    149    183    141
D160V7, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              2              183
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LGALS2 MUTATED        1      1      2      0      1      0      0
  LGALS2 WILD-TYPE     71    108     88     44     48     46     68
D160V8, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              1              108
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              0               68
[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
  LGALS2 MUTATED        1      3      1
  LGALS2 WILD-TYPE    174    208     89
D160V9, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              3              208
  CLUS_3              1               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
  LGALS2 MUTATED        0      1      2      2
  LGALS2 WILD-TYPE     70    185    129     87
D160V10, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1              185
  CLUS_3              2              129
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  LGALS2 MUTATED        1      1      1
  LGALS2 WILD-TYPE    140    181     88
D160V11, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              1              140
  CLUS_2              1              181
  CLUS_3              1               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
  LGALS2 MUTATED        0      2      1
  LGALS2 WILD-TYPE     94    231     84
D160V12, multiclass
        clus
vv       LGALS2 MUTATED LGALS2 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              2              231
  CLUS_3              1               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"

Clustering(161) Variable = PADI2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PADI2 MUTATED        0      0      0      1
  PADI2 WILD-TYPE      5      7      5      2
D161V1, multiclass
[1] "Remove cluster labels:" "PADI2 MUTATED"         
clus
  PADI2 MUTATED PADI2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PADI2 MUTATED        0      0      1
  PADI2 WILD-TYPE      7      9      3
D161V2, multiclass
[1] "Remove cluster labels:" "PADI2 MUTATED"         
clus
  PADI2 MUTATED PADI2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PADI2 WILD-TYPE" "PADI2 WILD-TYPE" "PADI2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PADI2 MUTATED        4      2      1      3
  PADI2 WILD-TYPE     61    208     71    128
D161V3, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             2             208
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PADI2 MUTATED        1      2      6
  PADI2 WILD-TYPE    130    136    155
D161V4, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             2             136
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PADI2 MUTATED        0      1      3
  PADI2 WILD-TYPE     42     70     60
D161V5, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             3              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
  PADI2 MUTATED        1      2      1      0      0
  PADI2 WILD-TYPE     38     30     42     30     32
D161V6, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              30
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PADI2 MUTATED        3      2      5
  PADI2 WILD-TYPE    147    183    138
D161V7, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             2             183
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PADI2 MUTATED        2      2      1      0      3      1      1
  PADI2 WILD-TYPE     70    107     89     44     46     45     67
D161V8, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             2             107
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             1              45
  CLUS_7             1              67
[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
  PADI2 MUTATED        4      5      1
  PADI2 WILD-TYPE    171    206     89
D161V9, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             5             206
  CLUS_3             1              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
  PADI2 MUTATED        0      3      5      2
  PADI2 WILD-TYPE     70    183    126     87
D161V10, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             183
  CLUS_3             5             126
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PADI2 MUTATED        3      4      1
  PADI2 WILD-TYPE    138    178     88
D161V11, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             4             178
  CLUS_3             1              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
  PADI2 MUTATED        1      6      1
  PADI2 WILD-TYPE     93    227     84
D161V12, multiclass
        clus
vv       PADI2 MUTATED PADI2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             6             227
  CLUS_3             1              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"

Clustering(162) Variable = C1ORF116 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF116 MUTATED        0      1      0      0
  C1ORF116 WILD-TYPE      5      6      5      3
D162V1, multiclass
[1] "Remove cluster labels:" "C1ORF116 MUTATED"      
clus
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2657 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3398 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-67-3773 
"C1ORF116 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        1      0      0
  C1ORF116 WILD-TYPE      6      9      4
D162V2, multiclass
[1] "Remove cluster labels:" "C1ORF116 MUTATED"      
clus
  C1ORF116 MUTATED C1ORF116 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2657 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3398 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" "C1ORF116 WILD-TYPE" 
        TCGA-67-3773 
"C1ORF116 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF116 MUTATED        2      4      1      4
  C1ORF116 WILD-TYPE     63    206     71    127
D162V3, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                4                206
  CLUS_3                1                 71
  CLUS_4                4                127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        1      3      6
  C1ORF116 WILD-TYPE    130    135    155
D162V4, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                130
  CLUS_2                3                135
  CLUS_3                6                155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        1      1      3
  C1ORF116 WILD-TYPE     41     70     60
D162V5, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                 70
  CLUS_3                3                 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
  C1ORF116 MUTATED        1      0      0      1      3
  C1ORF116 WILD-TYPE     38     32     43     29     29
D162V6, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                0                 32
  CLUS_3                0                 43
  CLUS_4                1                 29
  CLUS_5                3                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        2      6      3
  C1ORF116 WILD-TYPE    148    179    140
D162V7, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                148
  CLUS_2                6                179
  CLUS_3                3                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C1ORF116 MUTATED        2      3      2      0      1      2      1
  C1ORF116 WILD-TYPE     70    106     88     44     48     44     67
D162V8, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                 70
  CLUS_2                3                106
  CLUS_3                2                 88
  CLUS_4                0                 44
  CLUS_5                1                 48
  CLUS_6                2                 44
  CLUS_7                1                 67
[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
  C1ORF116 MUTATED        2      8      1
  C1ORF116 WILD-TYPE    173    203     89
D162V9, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                173
  CLUS_2                8                203
  CLUS_3                1                 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
  C1ORF116 MUTATED        2      4      2      3
  C1ORF116 WILD-TYPE     68    182    129     86
D162V10, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                4                182
  CLUS_3                2                129
  CLUS_4                3                 86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF116 MUTATED        3      3      2
  C1ORF116 WILD-TYPE    138    179     87
D162V11, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                3                138
  CLUS_2                3                179
  CLUS_3                2                 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
  C1ORF116 MUTATED        2      5      1
  C1ORF116 WILD-TYPE     92    228     84
D162V12, multiclass
        clus
vv       C1ORF116 MUTATED C1ORF116 WILD-TYPE
  CLUS_1                2                 92
  CLUS_2                5                228
  CLUS_3                1                 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"

Clustering(163) Variable = NBPF3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NBPF3 MUTATED        0      0      0      0
  NBPF3 WILD-TYPE      5      7      5      3
D163V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NBPF3 MUTATED        0      0      0
  NBPF3 WILD-TYPE      7      9      4
D163V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NBPF3 MUTATED        2      2      0      2
  NBPF3 WILD-TYPE     63    208     72    129
D163V3, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NBPF3 MUTATED        2      2      2
  NBPF3 WILD-TYPE    129    136    159
D163V4, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NBPF3 MUTATED        1      0      0
  NBPF3 WILD-TYPE     41     71     63
D163V5, multiclass
[1] "Remove cluster labels:" "NBPF3 MUTATED"         
clus
  NBPF3 MUTATED NBPF3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7163 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NBPF3 MUTATED        0      1      0      0      0
  NBPF3 WILD-TYPE     39     31     43     30     32
D163V6, multiclass
[1] "Remove cluster labels:" "NBPF3 MUTATED"         
clus
  NBPF3 MUTATED NBPF3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7163 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" "NBPF3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NBPF3 MUTATED        3      0      3
  NBPF3 WILD-TYPE    147    185    140
D163V7, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             0             185
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NBPF3 MUTATED        0      0      0      2      2      1      1
  NBPF3 WILD-TYPE     72    109     90     42     47     45     67
D163V8, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             0             109
  CLUS_3             0              90
  CLUS_4             2              42
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             1              67
[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
  NBPF3 MUTATED        2      4      0
  NBPF3 WILD-TYPE    173    207     90
D163V9, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             4             207
  CLUS_3             0              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
  NBPF3 MUTATED        0      3      2      1
  NBPF3 WILD-TYPE     70    183    129     88
D163V10, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             183
  CLUS_3             2             129
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NBPF3 MUTATED        0      5      0
  NBPF3 WILD-TYPE    141    177     89
D163V11, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             5             177
  CLUS_3             0              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
  NBPF3 MUTATED        1      4      0
  NBPF3 WILD-TYPE     93    229     85
D163V12, multiclass
        clus
vv       NBPF3 MUTATED NBPF3 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             4             229
  CLUS_3             0              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"

Clustering(164) Variable = RNMT MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNMT MUTATED        0      0      0      0
  RNMT WILD-TYPE      5      7      5      3
D164V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RNMT MUTATED        0      0      0
  RNMT WILD-TYPE      7      9      4
D164V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNMT MUTATED        0      1      3      4
  RNMT WILD-TYPE     65    209     69    127
D164V3, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            0             65
  CLUS_2            1            209
  CLUS_3            3             69
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RNMT MUTATED        1      5      2
  RNMT WILD-TYPE    130    133    159
D164V4, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            1            130
  CLUS_2            5            133
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RNMT MUTATED        1      2      2
  RNMT WILD-TYPE     41     69     61
D164V5, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            2             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
  RNMT MUTATED        0      0      3      1      1
  RNMT WILD-TYPE     39     32     40     29     31
D164V6, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RNMT MUTATED        1      4      3
  RNMT WILD-TYPE    149    181    140
D164V7, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            1            149
  CLUS_2            4            181
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RNMT MUTATED        1      2      3      0      1      1      0
  RNMT WILD-TYPE     71    107     87     44     48     45     68
D164V8, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            1             71
  CLUS_2            2            107
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  RNMT MUTATED        2      3      3
  RNMT WILD-TYPE    173    208     87
D164V9, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            2            173
  CLUS_2            3            208
  CLUS_3            3             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
  RNMT MUTATED        2      5      0      1
  RNMT WILD-TYPE     68    181    131     88
D164V10, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            181
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RNMT MUTATED        3      3      1
  RNMT WILD-TYPE    138    179     88
D164V11, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            3            138
  CLUS_2            3            179
  CLUS_3            1             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
  RNMT MUTATED        0      4      3
  RNMT WILD-TYPE     94    229     82
D164V12, multiclass
        clus
vv       RNMT MUTATED RNMT WILD-TYPE
  CLUS_1            0             94
  CLUS_2            4            229
  CLUS_3            3             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"

Clustering(165) Variable = PXK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PXK MUTATED        0      0      0      0
  PXK WILD-TYPE      5      7      5      3
D165V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PXK MUTATED        0      0      0
  PXK WILD-TYPE      7      9      4
D165V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PXK MUTATED        2      2      0      3
  PXK WILD-TYPE     63    208     72    128
D165V3, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           2            63
  CLUS_2           2           208
  CLUS_3           0            72
  CLUS_4           3           128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PXK MUTATED        0      2      3
  PXK WILD-TYPE    131    136    158
D165V4, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           0           131
  CLUS_2           2           136
  CLUS_3           3           158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PXK MUTATED        0      2      0
  PXK WILD-TYPE     42     69     63
D165V5, multiclass
[1] "Remove cluster labels:" "PXK MUTATED"           
clus
  PXK MUTATED PXK WILD-TYPE 
            2           174 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4398    TCGA-05-4402 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-05-4405    TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-05-4422    TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-05-5429    TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6146 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-6147    TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-6779    TCGA-44-7659    TCGA-44-7662    TCGA-44-7670    TCGA-44-7671 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-7672    TCGA-49-4486    TCGA-49-4487    TCGA-49-4488    TCGA-49-4494 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-49-4501    TCGA-49-4505    TCGA-49-4506    TCGA-49-4507    TCGA-49-4510 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-49-4512    TCGA-49-4514    TCGA-49-6742    TCGA-49-6744    TCGA-49-6745 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-49-6761    TCGA-49-6767    TCGA-50-5044    TCGA-50-5049    TCGA-50-5051 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-50-5068    TCGA-50-5072    TCGA-50-5931    TCGA-50-5932    TCGA-50-5933 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-50-5936    TCGA-50-5939    TCGA-50-5941    TCGA-50-5942    TCGA-50-5944 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-50-6593    TCGA-50-6595    TCGA-50-6597    TCGA-50-6673    TCGA-50-7109 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-53-7626    TCGA-53-7813    TCGA-55-1592    TCGA-55-6543    TCGA-55-6712 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-55-6970    TCGA-55-6971    TCGA-55-6978    TCGA-55-6979    TCGA-55-6981 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-55-6982    TCGA-55-7573    TCGA-55-7574    TCGA-55-7728    TCGA-55-7815 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-55-7911    TCGA-64-1676    TCGA-64-1677    TCGA-64-1681    TCGA-64-5774 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-64-5778    TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-67-6217    TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-69-7765    TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-73-4676    TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-75-6205    TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-75-7027    TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7147    TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7153    TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7159    TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7166    TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7539    TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-80-5608    TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849    TCGA-91-7771 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567    TCGA-95-7947 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553    TCGA-97-7554 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PXK MUTATED        0      0      2      0      0
  PXK WILD-TYPE     39     32     41     30     32
D165V6, multiclass
[1] "Remove cluster labels:" "PXK MUTATED"           
clus
  PXK MUTATED PXK WILD-TYPE 
            2           174 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4398    TCGA-05-4402 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-05-4405    TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-05-4422    TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-05-5429    TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6146 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-6147    TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-6779    TCGA-44-7659    TCGA-44-7662    TCGA-44-7670    TCGA-44-7671 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-44-7672    TCGA-49-4486    TCGA-49-4487    TCGA-49-4488    TCGA-49-4494 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-49-4501    TCGA-49-4505    TCGA-49-4506    TCGA-49-4507    TCGA-49-4510 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-49-4512    TCGA-49-4514    TCGA-49-6742    TCGA-49-6744    TCGA-49-6745 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-49-6761    TCGA-49-6767    TCGA-50-5044    TCGA-50-5049    TCGA-50-5051 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-50-5068    TCGA-50-5072    TCGA-50-5931    TCGA-50-5932    TCGA-50-5933 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-50-5936    TCGA-50-5939    TCGA-50-5941    TCGA-50-5942    TCGA-50-5944 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-50-6593    TCGA-50-6595    TCGA-50-6597    TCGA-50-6673    TCGA-50-7109 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-53-7626    TCGA-53-7813    TCGA-55-1592    TCGA-55-6543    TCGA-55-6712 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-55-6970    TCGA-55-6971    TCGA-55-6978    TCGA-55-6979    TCGA-55-6981 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-55-6982    TCGA-55-7573    TCGA-55-7574    TCGA-55-7728    TCGA-55-7815 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-55-7911    TCGA-64-1676    TCGA-64-1677    TCGA-64-1681    TCGA-64-5774 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-64-5778    TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-67-6217    TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-69-7765    TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-73-4676    TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-75-6205    TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-75-7027    TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7147    TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7153    TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7159    TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7166    TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-78-7539    TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-80-5608    TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849    TCGA-91-7771 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567    TCGA-95-7947 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553    TCGA-97-7554 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
   TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" "PXK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PXK MUTATED        1      5      1
  PXK WILD-TYPE    149    180    142
D165V7, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           1           149
  CLUS_2           5           180
  CLUS_3           1           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PXK MUTATED        1      3      1      0      1      0      1
  PXK WILD-TYPE     71    106     89     44     48     46     67
D165V8, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           1            71
  CLUS_2           3           106
  CLUS_3           1            89
  CLUS_4           0            44
  CLUS_5           1            48
  CLUS_6           0            46
  CLUS_7           1            67
[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
  PXK MUTATED        1      3      3
  PXK WILD-TYPE    174    208     87
D165V9, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           1           174
  CLUS_2           3           208
  CLUS_3           3            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
  PXK MUTATED        0      2      1      4
  PXK WILD-TYPE     70    184    130     85
D165V10, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           0            70
  CLUS_2           2           184
  CLUS_3           1           130
  CLUS_4           4            85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PXK MUTATED        2      0      2
  PXK WILD-TYPE    139    182     87
D165V11, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           2           139
  CLUS_2           0           182
  CLUS_3           2            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
  PXK MUTATED        0      2      2
  PXK WILD-TYPE     94    231     83
D165V12, multiclass
        clus
vv       PXK MUTATED PXK WILD-TYPE
  CLUS_1           0            94
  CLUS_2           2           231
  CLUS_3           2            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"

Clustering(166) Variable = ZNF223 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF223 MUTATED        0      0      0      0
  ZNF223 WILD-TYPE      5      7      5      3
D166V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF223 MUTATED        0      0      0
  ZNF223 WILD-TYPE      7      9      4
D166V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF223 MUTATED        1      2      1      6
  ZNF223 WILD-TYPE     64    208     71    125
D166V3, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              6              125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF223 MUTATED        0      7      3
  ZNF223 WILD-TYPE    131    131    158
D166V4, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              7              131
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF223 MUTATED        1      3      0
  ZNF223 WILD-TYPE     41     68     63
D166V5, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3               68
  CLUS_3              0               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 CLUS_4 CLUS_5
  ZNF223 MUTATED        0      0      2      0      2
  ZNF223 WILD-TYPE     39     32     41     30     30
D166V6, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF223 MUTATED        1      5      4
  ZNF223 WILD-TYPE    149    180    139
D166V7, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              5              180
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF223 MUTATED        1      1      5      1      1      1      0
  ZNF223 WILD-TYPE     71    108     85     43     48     45     68
D166V8, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              1              108
  CLUS_3              5               85
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              1               45
  CLUS_7              0               68
[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
  ZNF223 MUTATED        1      8      1
  ZNF223 WILD-TYPE    174    203     89
D166V9, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              8              203
  CLUS_3              1               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
  ZNF223 MUTATED        1      4      0      5
  ZNF223 WILD-TYPE     69    182    131     84
D166V10, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              182
  CLUS_3              0              131
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF223 MUTATED        5      5      0
  ZNF223 WILD-TYPE    136    177     89
D166V11, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              5              136
  CLUS_2              5              177
  CLUS_3              0               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
  ZNF223 MUTATED        2      8      0
  ZNF223 WILD-TYPE     92    225     85
D166V12, multiclass
        clus
vv       ZNF223 MUTATED ZNF223 WILD-TYPE
  CLUS_1              2               92
  CLUS_2              8              225
  CLUS_3              0               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"

Clustering(167) Variable = ASXL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASXL2 MUTATED        0      1      0      0
  ASXL2 WILD-TYPE      5      6      5      3
D167V1, multiclass
[1] "Remove cluster labels:" "ASXL2 MUTATED"         
clus
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL2 MUTATED        0      1      0
  ASXL2 WILD-TYPE      7      8      4
D167V2, multiclass
[1] "Remove cluster labels:" "ASXL2 MUTATED"         
clus
  ASXL2 MUTATED ASXL2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" "ASXL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASXL2 MUTATED        4      8      2      3
  ASXL2 WILD-TYPE     61    202     70    128
D167V3, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             8             202
  CLUS_3             2              70
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      7      6
  ASXL2 WILD-TYPE    128    131    155
D167V4, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             7             131
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      3      1
  ASXL2 WILD-TYPE     41     68     62
D167V5, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             3              68
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASXL2 MUTATED        1      1      0      2      1
  ASXL2 WILD-TYPE     38     31     43     28     31
D167V6, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             2              28
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL2 MUTATED        5      5      8
  ASXL2 WILD-TYPE    145    180    135
D167V7, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             5             145
  CLUS_2             5             180
  CLUS_3             8             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ASXL2 MUTATED        1      5      3      3      3      1      2
  ASXL2 WILD-TYPE     71    104     87     41     46     45     66
D167V8, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             3              87
  CLUS_4             3              41
  CLUS_5             3              46
  CLUS_6             1              45
  CLUS_7             2              66
[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      9      5
  ASXL2 WILD-TYPE    171    202     85
D167V9, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             9             202
  CLUS_3             5              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
  ASXL2 MUTATED        2      7      3      6
  ASXL2 WILD-TYPE     68    179    128     83
D167V10, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             179
  CLUS_3             3             128
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     10      4
  ASXL2 WILD-TYPE    139    172     85
D167V11, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2             139
  CLUS_2            10             172
  CLUS_3             4              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
  ASXL2 MUTATED        4     10      2
  ASXL2 WILD-TYPE     90    223     83
D167V12, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             4              90
  CLUS_2            10             223
  CLUS_3             2              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"

Clustering(168) Variable = CPA4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CPA4 MUTATED        0      0      0      0
  CPA4 WILD-TYPE      5      7      5      3
D168V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPA4 MUTATED        0      0      0
  CPA4 WILD-TYPE      7      9      4
D168V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CPA4 MUTATED        1      6      4      3
  CPA4 WILD-TYPE     64    204     68    128
D168V3, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            6            204
  CLUS_3            4             68
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPA4 MUTATED        4      2      7
  CPA4 WILD-TYPE    127    136    154
D168V4, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            4            127
  CLUS_2            2            136
  CLUS_3            7            154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPA4 MUTATED        0      2      1
  CPA4 WILD-TYPE     42     69     62
D168V5, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2             69
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CPA4 MUTATED        1      0      1      1      0
  CPA4 WILD-TYPE     38     32     42     29     32
D168V6, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPA4 MUTATED        3      9      2
  CPA4 WILD-TYPE    147    176    141
D168V7, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            9            176
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CPA4 MUTATED        0      6      1      0      2      1      4
  CPA4 WILD-TYPE     72    103     89     44     47     45     64
D168V8, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            6            103
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            4             64
[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
  CPA4 MUTATED        1      9      4
  CPA4 WILD-TYPE    174    202     86
D168V9, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            1            174
  CLUS_2            9            202
  CLUS_3            4             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
  CPA4 MUTATED        0      6      3      5
  CPA4 WILD-TYPE     70    180    128     84
D168V10, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            180
  CLUS_3            3            128
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CPA4 MUTATED        4      5      4
  CPA4 WILD-TYPE    137    177     85
D168V11, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            5            177
  CLUS_3            4             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
  CPA4 MUTATED        0     10      3
  CPA4 WILD-TYPE     94    223     82
D168V12, multiclass
        clus
vv       CPA4 MUTATED CPA4 WILD-TYPE
  CLUS_1            0             94
  CLUS_2           10            223
  CLUS_3            3             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"

Clustering(169) Variable = SNX9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNX9 MUTATED        0      0      0      0
  SNX9 WILD-TYPE      5      7      5      3
D169V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX9 MUTATED        0      0      0
  SNX9 WILD-TYPE      7      9      4
D169V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SNX9 MUTATED        0      4      1      2
  SNX9 WILD-TYPE     65    206     71    129
D169V3, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            4            206
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX9 MUTATED        0      3      3
  SNX9 WILD-TYPE    131    135    158
D169V4, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            0            131
  CLUS_2            3            135
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX9 MUTATED        1      0      1
  SNX9 WILD-TYPE     41     71     62
D169V5, multiclass
[1] "Remove cluster labels:" "SNX9 MUTATED"          
clus
  SNX9 MUTATED SNX9 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-69-7765     TCGA-71-6725 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4675     TCGA-73-4676 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-6203 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7147     TCGA-78-7148 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7535 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-80-5608     TCGA-86-6562 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7567 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SNX9 MUTATED        0      0      1      0      1
  SNX9 WILD-TYPE     39     32     42     30     31
D169V6, multiclass
[1] "Remove cluster labels:" "SNX9 MUTATED"          
clus
  SNX9 MUTATED SNX9 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-69-7765     TCGA-71-6725 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4675     TCGA-73-4676 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-6203 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7147     TCGA-78-7148 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7535 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-80-5608     TCGA-86-6562 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7567 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"SNX9 WILD-TYPE" "SNX9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX9 MUTATED        4      1      2
  SNX9 WILD-TYPE    146    184    141
D169V7, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            4            146
  CLUS_2            1            184
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SNX9 MUTATED        1      1      1      2      1      1      0
  SNX9 WILD-TYPE     71    108     89     42     48     45     68
D169V8, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            1            108
  CLUS_3            1             89
  CLUS_4            2             42
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  SNX9 MUTATED        3      2      1
  SNX9 WILD-TYPE    172    209     89
D169V9, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            3            172
  CLUS_2            2            209
  CLUS_3            1             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
  SNX9 MUTATED        2      3      0      1
  SNX9 WILD-TYPE     68    183    131     88
D169V10, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            183
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SNX9 MUTATED        1      2      3
  SNX9 WILD-TYPE    140    180     86
D169V11, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            2            180
  CLUS_3            3             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
  SNX9 MUTATED        1      4      1
  SNX9 WILD-TYPE     93    229     84
D169V12, multiclass
        clus
vv       SNX9 MUTATED SNX9 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            4            229
  CLUS_3            1             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"

Clustering(170) Variable = BAP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAP1 MUTATED        0      0      0      0
  BAP1 WILD-TYPE      5      7      5      3
D170V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        0      0      0
  BAP1 WILD-TYPE      7      9      4
D170V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAP1 MUTATED        1      2      3      2
  BAP1 WILD-TYPE     64    208     69    129
D170V3, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            2            208
  CLUS_3            3             69
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        2      0      3
  BAP1 WILD-TYPE    129    138    158
D170V4, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            0            138
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        1      1      1
  BAP1 WILD-TYPE     41     70     62
D170V5, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BAP1 MUTATED        1      1      0      1      0
  BAP1 WILD-TYPE     38     31     43     29     32
D170V6, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            1             31
  CLUS_3            0             43
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        3      4      1
  BAP1 WILD-TYPE    147    181    142
D170V7, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            4            181
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BAP1 MUTATED        2      3      0      1      0      2      0
  BAP1 WILD-TYPE     70    106     90     43     49     44     68
D170V8, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            2             70
  CLUS_2            3            106
  CLUS_3            0             90
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            2             44
  CLUS_7            0             68
[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
  BAP1 MUTATED        4      3      0
  BAP1 WILD-TYPE    171    208     90
D170V9, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            4            171
  CLUS_2            3            208
  CLUS_3            0             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
  BAP1 MUTATED        2      3      2      0
  BAP1 WILD-TYPE     68    183    129     89
D170V10, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            3            183
  CLUS_3            2            129
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        0      5      0
  BAP1 WILD-TYPE    141    177     89
D170V11, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            0            141
  CLUS_2            5            177
  CLUS_3            0             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
  BAP1 MUTATED        2      3      0
  BAP1 WILD-TYPE     92    230     85
D170V12, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            3            230
  CLUS_3            0             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"

Clustering(171) Variable = PCSK4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCSK4 MUTATED        0      0      0      1
  PCSK4 WILD-TYPE      5      7      5      2
D171V1, multiclass
[1] "Remove cluster labels:" "PCSK4 MUTATED"         
clus
  PCSK4 MUTATED PCSK4 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK4 MUTATED        0      0      1
  PCSK4 WILD-TYPE      7      9      3
D171V2, multiclass
[1] "Remove cluster labels:" "PCSK4 MUTATED"         
clus
  PCSK4 MUTATED PCSK4 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCSK4 MUTATED        3      2      0      3
  PCSK4 WILD-TYPE     62    208     72    128
D171V3, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK4 MUTATED        1      2      4
  PCSK4 WILD-TYPE    130    136    157
D171V4, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             2             136
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK4 MUTATED        1      0      1
  PCSK4 WILD-TYPE     41     71     62
D171V5, multiclass
[1] "Remove cluster labels:" "PCSK4 MUTATED"         
clus
  PCSK4 MUTATED PCSK4 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7813 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCSK4 MUTATED        0      1      0      0      1
  PCSK4 WILD-TYPE     39     31     43     30     31
D171V6, multiclass
[1] "Remove cluster labels:" "PCSK4 MUTATED"         
clus
  PCSK4 MUTATED PCSK4 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7813 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"PCSK4 WILD-TYPE" "PCSK4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK4 MUTATED        2      4      2
  PCSK4 WILD-TYPE    148    181    141
D171V7, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             4             181
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCSK4 MUTATED        1      3      2      0      1      0      1
  PCSK4 WILD-TYPE     71    106     88     44     48     46     67
D171V8, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  PCSK4 MUTATED        1      6      1
  PCSK4 WILD-TYPE    174    205     89
D171V9, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             1              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
  PCSK4 MUTATED        0      5      1      2
  PCSK4 WILD-TYPE     70    181    130     87
D171V10, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             181
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCSK4 MUTATED        1      5      1
  PCSK4 WILD-TYPE    140    177     88
D171V11, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             5             177
  CLUS_3             1              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
  PCSK4 MUTATED        0      5      2
  PCSK4 WILD-TYPE     94    228     83
D171V12, multiclass
        clus
vv       PCSK4 MUTATED PCSK4 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             2              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"

Clustering(172) Variable = FOLH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOLH1 MUTATED        0      1      0      0
  FOLH1 WILD-TYPE      5      6      5      3
D172V1, multiclass
[1] "Remove cluster labels:" "FOLH1 MUTATED"         
clus
  FOLH1 MUTATED FOLH1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLH1 MUTATED        0      1      0
  FOLH1 WILD-TYPE      7      8      4
D172V2, multiclass
[1] "Remove cluster labels:" "FOLH1 MUTATED"         
clus
  FOLH1 MUTATED FOLH1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" "FOLH1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOLH1 MUTATED        1     13      5      8
  FOLH1 WILD-TYPE     64    197     67    123
D172V3, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2            13             197
  CLUS_3             5              67
  CLUS_4             8             123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLH1 MUTATED        5     11      9
  FOLH1 WILD-TYPE    126    127    152
D172V4, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             5             126
  CLUS_2            11             127
  CLUS_3             9             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLH1 MUTATED        0      4      4
  FOLH1 WILD-TYPE     42     67     59
D172V5, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4              67
  CLUS_3             4              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 CLUS_4 CLUS_5
  FOLH1 MUTATED        1      0      5      2      0
  FOLH1 WILD-TYPE     38     32     38     28     32
D172V6, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             5              38
  CLUS_4             2              28
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLH1 MUTATED        4     17      7
  FOLH1 WILD-TYPE    146    168    136
D172V7, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             4             146
  CLUS_2            17             168
  CLUS_3             7             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FOLH1 MUTATED        3      7     11      1      3      1      2
  FOLH1 WILD-TYPE     69    102     79     43     46     45     66
D172V8, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             7             102
  CLUS_3            11              79
  CLUS_4             1              43
  CLUS_5             3              46
  CLUS_6             1              45
  CLUS_7             2              66
[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
  FOLH1 MUTATED        7     17      3
  FOLH1 WILD-TYPE    168    194     87
D172V9, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             7             168
  CLUS_2            17             194
  CLUS_3             3              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
  FOLH1 MUTATED        4      9      3     11
  FOLH1 WILD-TYPE     66    177    128     78
D172V10, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             177
  CLUS_3             3             128
  CLUS_4            11              78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOLH1 MUTATED        6     15      2
  FOLH1 WILD-TYPE    135    167     87
D172V11, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             6             135
  CLUS_2            15             167
  CLUS_3             2              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
  FOLH1 MUTATED        4     15      4
  FOLH1 WILD-TYPE     90    218     81
D172V12, multiclass
        clus
vv       FOLH1 MUTATED FOLH1 WILD-TYPE
  CLUS_1             4              90
  CLUS_2            15             218
  CLUS_3             4              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"

Clustering(173) Variable = ERLIN2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERLIN2 MUTATED        0      0      0      1
  ERLIN2 WILD-TYPE      5      7      5      2
D173V1, multiclass
[1] "Remove cluster labels:" "ERLIN2 MUTATED"        
clus
  ERLIN2 MUTATED ERLIN2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERLIN2 MUTATED        0      0      1
  ERLIN2 WILD-TYPE      7      9      3
D173V2, multiclass
[1] "Remove cluster labels:" "ERLIN2 MUTATED"        
clus
  ERLIN2 MUTATED ERLIN2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERLIN2 MUTATED        1      2      1      2
  ERLIN2 WILD-TYPE     64    208     71    129
D173V3, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERLIN2 MUTATED        0      3      2
  ERLIN2 WILD-TYPE    131    135    159
D173V4, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              3              135
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERLIN2 MUTATED        0      0      2
  ERLIN2 WILD-TYPE     42     71     61
D173V5, multiclass
[1] "Remove cluster labels:" "ERLIN2 MUTATED"        
clus
  ERLIN2 MUTATED ERLIN2 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERLIN2 MUTATED        0      0      1      1      0
  ERLIN2 WILD-TYPE     39     32     42     29     32
D173V6, multiclass
[1] "Remove cluster labels:" "ERLIN2 MUTATED"        
clus
  ERLIN2 MUTATED ERLIN2 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"ERLIN2 WILD-TYPE" "ERLIN2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERLIN2 MUTATED        0      4      2
  ERLIN2 WILD-TYPE    150    181    141
D173V7, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              4              181
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ERLIN2 MUTATED        0      1      2      0      1      2      0
  ERLIN2 WILD-TYPE     72    108     88     44     48     44     68
D173V8, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              0               68
[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
  ERLIN2 MUTATED        1      4      1
  ERLIN2 WILD-TYPE    174    207     89
D173V9, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              4              207
  CLUS_3              1               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
  ERLIN2 MUTATED        1      3      0      2
  ERLIN2 WILD-TYPE     69    183    131     87
D173V10, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              3              183
  CLUS_3              0              131
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERLIN2 MUTATED        0      3      2
  ERLIN2 WILD-TYPE    141    179     87
D173V11, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              0              141
  CLUS_2              3              179
  CLUS_3              2               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
  ERLIN2 MUTATED        0      5      0
  ERLIN2 WILD-TYPE     94    228     85
D173V12, multiclass
        clus
vv       ERLIN2 MUTATED ERLIN2 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              5              228
  CLUS_3              0               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"

Clustering(174) Variable = SBSN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SBSN MUTATED        0      0      0      0
  SBSN WILD-TYPE      5      7      5      3
D174V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        0      0      0
  SBSN WILD-TYPE      7      9      4
D174V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SBSN MUTATED        2      3      2      5
  SBSN WILD-TYPE     63    207     70    126
D174V3, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3            207
  CLUS_3            2             70
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        1      5      5
  SBSN WILD-TYPE    130    133    156
D174V4, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1            130
  CLUS_2            5            133
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        0      2      1
  SBSN WILD-TYPE     42     69     62
D174V5, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2             69
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SBSN MUTATED        1      0      2      0      0
  SBSN WILD-TYPE     38     32     41     30     32
D174V6, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            0             30
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        3      3      6
  SBSN WILD-TYPE    147    182    137
D174V7, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            3            147
  CLUS_2            3            182
  CLUS_3            6            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SBSN MUTATED        2      2      3      0      3      0      2
  SBSN WILD-TYPE     70    107     87     44     46     46     66
D174V8, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             70
  CLUS_2            2            107
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            3             46
  CLUS_6            0             46
  CLUS_7            2             66
[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
  SBSN MUTATED        2     10      0
  SBSN WILD-TYPE    173    201     90
D174V9, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2            173
  CLUS_2           10            201
  CLUS_3            0             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
  SBSN MUTATED        2      5      0      5
  SBSN WILD-TYPE     68    181    131     84
D174V10, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            181
  CLUS_3            0            131
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SBSN MUTATED        1      8      1
  SBSN WILD-TYPE    140    174     88
D174V11, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            1            140
  CLUS_2            8            174
  CLUS_3            1             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
  SBSN MUTATED        2      7      1
  SBSN WILD-TYPE     92    226     84
D174V12, multiclass
        clus
vv       SBSN MUTATED SBSN WILD-TYPE
  CLUS_1            2             92
  CLUS_2            7            226
  CLUS_3            1             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"

Clustering(175) Variable = NID2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NID2 MUTATED        0      0      0      0
  NID2 WILD-TYPE      5      7      5      3
D175V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NID2 MUTATED        0      0      0
  NID2 WILD-TYPE      7      9      4
D175V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NID2 MUTATED        2     10      6     15
  NID2 WILD-TYPE     63    200     66    116
D175V3, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            2             63
  CLUS_2           10            200
  CLUS_3            6             66
  CLUS_4           15            116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NID2 MUTATED        3      8     18
  NID2 WILD-TYPE    128    130    143
D175V4, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            8            130
  CLUS_3           18            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NID2 MUTATED        3      1      6
  NID2 WILD-TYPE     39     70     57
D175V5, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            1             70
  CLUS_3            6             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 CLUS_4 CLUS_5
  NID2 MUTATED        0      1      2      2      5
  NID2 WILD-TYPE     39     31     41     28     27
D175V6, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            2             41
  CLUS_4            2             28
  CLUS_5            5             27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NID2 MUTATED        8     17      8
  NID2 WILD-TYPE    142    168    135
D175V7, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            8            142
  CLUS_2           17            168
  CLUS_3            8            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NID2 MUTATED        3     11      9      2      1      3      4
  NID2 WILD-TYPE     69     98     81     42     48     43     64
D175V8, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            3             69
  CLUS_2           11             98
  CLUS_3            9             81
  CLUS_4            2             42
  CLUS_5            1             48
  CLUS_6            3             43
  CLUS_7            4             64
[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
  NID2 MUTATED        5     19      8
  NID2 WILD-TYPE    170    192     82
D175V9, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            5            170
  CLUS_2           19            192
  CLUS_3            8             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
  NID2 MUTATED        3     18      3      8
  NID2 WILD-TYPE     67    168    128     81
D175V10, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            3             67
  CLUS_2           18            168
  CLUS_3            3            128
  CLUS_4            8             81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NID2 MUTATED        6     18      5
  NID2 WILD-TYPE    135    164     84
D175V11, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            6            135
  CLUS_2           18            164
  CLUS_3            5             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
  NID2 MUTATED        3     18      8
  NID2 WILD-TYPE     91    215     77
D175V12, multiclass
        clus
vv       NID2 MUTATED NID2 WILD-TYPE
  CLUS_1            3             91
  CLUS_2           18            215
  CLUS_3            8             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"

Clustering(176) Variable = SAMD7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAMD7 MUTATED        0      0      0      0
  SAMD7 WILD-TYPE      5      7      5      3
D176V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAMD7 MUTATED        0      0      0
  SAMD7 WILD-TYPE      7      9      4
D176V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAMD7 MUTATED        2      5      1      3
  SAMD7 WILD-TYPE     63    205     71    128
D176V3, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             5             205
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAMD7 MUTATED        1      5      4
  SAMD7 WILD-TYPE    130    133    157
D176V4, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             5             133
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAMD7 MUTATED        1      1      2
  SAMD7 WILD-TYPE     41     70     61
D176V5, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             2              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
  SAMD7 MUTATED        1      1      0      0      2
  SAMD7 WILD-TYPE     38     31     43     30     30
D176V6, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAMD7 MUTATED        2      6      3
  SAMD7 WILD-TYPE    148    179    140
D176V7, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             6             179
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SAMD7 MUTATED        2      3      3      0      2      1      0
  SAMD7 WILD-TYPE     70    106     87     44     47     45     68
D176V8, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             3             106
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             0              68
[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
  SAMD7 MUTATED        3      7      1
  SAMD7 WILD-TYPE    172    204     89
D176V9, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             1              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
  SAMD7 MUTATED        2      7      1      1
  SAMD7 WILD-TYPE     68    179    130     88
D176V10, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             7             179
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SAMD7 MUTATED        4      4      1
  SAMD7 WILD-TYPE    137    178     88
D176V11, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             4             178
  CLUS_3             1              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
  SAMD7 MUTATED        1      6      2
  SAMD7 WILD-TYPE     93    227     83
D176V12, multiclass
        clus
vv       SAMD7 MUTATED SAMD7 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             6             227
  CLUS_3             2              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"

Clustering(177) Variable = SERPINB5 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINB5 MUTATED        0      0      0      0
  SERPINB5 WILD-TYPE      5      7      5      3
D177V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB5 MUTATED        0      0      0
  SERPINB5 WILD-TYPE      7      9      4
D177V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERPINB5 MUTATED        2      2      1      4
  SERPINB5 WILD-TYPE     63    208     71    127
D177V3, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                2                208
  CLUS_3                1                 71
  CLUS_4                4                127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB5 MUTATED        3      2      4
  SERPINB5 WILD-TYPE    128    136    157
D177V4, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                3                128
  CLUS_2                2                136
  CLUS_3                4                157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB5 MUTATED        0      3      2
  SERPINB5 WILD-TYPE     42     68     61
D177V5, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                 68
  CLUS_3                2                 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
  SERPINB5 MUTATED        3      0      0      2      0
  SERPINB5 WILD-TYPE     36     32     43     28     32
D177V6, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                3                 36
  CLUS_2                0                 32
  CLUS_3                0                 43
  CLUS_4                2                 28
  CLUS_5                0                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB5 MUTATED        3      5      1
  SERPINB5 WILD-TYPE    147    180    142
D177V7, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                3                147
  CLUS_2                5                180
  CLUS_3                1                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SERPINB5 MUTATED        2      1      4      0      2      0      0
  SERPINB5 WILD-TYPE     70    108     86     44     47     46     68
D177V8, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                2                 70
  CLUS_2                1                108
  CLUS_3                4                 86
  CLUS_4                0                 44
  CLUS_5                2                 47
  CLUS_6                0                 46
  CLUS_7                0                 68
[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
  SERPINB5 MUTATED        2      5      2
  SERPINB5 WILD-TYPE    173    206     88
D177V9, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                2                173
  CLUS_2                5                206
  CLUS_3                2                 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
  SERPINB5 MUTATED        1      5      2      1
  SERPINB5 WILD-TYPE     69    181    129     88
D177V10, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                5                181
  CLUS_3                2                129
  CLUS_4                1                 88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  SERPINB5 MUTATED        3      4      2
  SERPINB5 WILD-TYPE    138    178     87
D177V11, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                3                138
  CLUS_2                4                178
  CLUS_3                2                 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
  SERPINB5 MUTATED        1      6      2
  SERPINB5 WILD-TYPE     93    227     83
D177V12, multiclass
        clus
vv       SERPINB5 MUTATED SERPINB5 WILD-TYPE
  CLUS_1                1                 93
  CLUS_2                6                227
  CLUS_3                2                 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"

Clustering(178) Variable = SLC39A6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC39A6 MUTATED        1      1      0      0
  SLC39A6 WILD-TYPE      4      6      5      3
D178V1, multiclass
[1] "Remove cluster labels:" "SLC39A6 MUTATED"       
clus
  SLC39A6 MUTATED SLC39A6 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-64-1677        TCGA-67-3771 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC39A6 MUTATED        0      1      1
  SLC39A6 WILD-TYPE      7      8      3
D178V2, multiclass
[1] "Remove cluster labels:" "SLC39A6 MUTATED"       
clus
  SLC39A6 MUTATED SLC39A6 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-64-1677        TCGA-67-3771 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
       TCGA-67-3772        TCGA-67-3773 
"SLC39A6 WILD-TYPE" "SLC39A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC39A6 MUTATED        3      4      4      3
  SLC39A6 WILD-TYPE     62    206     68    128
D178V3, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               3                62
  CLUS_2               4               206
  CLUS_3               4                68
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC39A6 MUTATED        1      8      3
  SLC39A6 WILD-TYPE    130    130    158
D178V4, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               8               130
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC39A6 MUTATED        1      1      2
  SLC39A6 WILD-TYPE     41     70     61
D178V5, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1                70
  CLUS_3               2                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
  SLC39A6 MUTATED        0      1      2      1      0
  SLC39A6 WILD-TYPE     39     31     41     29     32
D178V6, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC39A6 MUTATED        2      6      6
  SLC39A6 WILD-TYPE    148    179    137
D178V7, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               6               179
  CLUS_3               6               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC39A6 MUTATED        1      4      3      1      0      4      1
  SLC39A6 WILD-TYPE     71    105     87     43     49     42     67
D178V8, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               4               105
  CLUS_3               3                87
  CLUS_4               1                43
  CLUS_5               0                49
  CLUS_6               4                42
  CLUS_7               1                67
[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
  SLC39A6 MUTATED        3      5      6
  SLC39A6 WILD-TYPE    172    206     84
D178V9, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               3               172
  CLUS_2               5               206
  CLUS_3               6                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
  SLC39A6 MUTATED        3      8      0      3
  SLC39A6 WILD-TYPE     67    178    131     86
D178V10, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               8               178
  CLUS_3               0               131
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC39A6 MUTATED        3      3      6
  SLC39A6 WILD-TYPE    138    179     83
D178V11, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               3               179
  CLUS_3               6                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
  SLC39A6 MUTATED        0      9      3
  SLC39A6 WILD-TYPE     94    224     82
D178V12, multiclass
        clus
vv       SLC39A6 MUTATED SLC39A6 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               9               224
  CLUS_3               3                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"

Clustering(179) Variable = PHKA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHKA1 MUTATED        0      0      0      1
  PHKA1 WILD-TYPE      5      7      5      2
D179V1, multiclass
[1] "Remove cluster labels:" "PHKA1 MUTATED"         
clus
  PHKA1 MUTATED PHKA1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA1 MUTATED        0      0      1
  PHKA1 WILD-TYPE      7      9      3
D179V2, multiclass
[1] "Remove cluster labels:" "PHKA1 MUTATED"         
clus
  PHKA1 MUTATED PHKA1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" "PHKA1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PHKA1 MUTATED        2      1      0      9
  PHKA1 WILD-TYPE     63    209     72    122
D179V3, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             1             209
  CLUS_3             0              72
  CLUS_4             9             122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA1 MUTATED        2      6      3
  PHKA1 WILD-TYPE    129    132    158
D179V4, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             6             132
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA1 MUTATED        3      2      1
  PHKA1 WILD-TYPE     39     69     62
D179V5, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2              69
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKA1 MUTATED        0      2      2      0      2
  PHKA1 WILD-TYPE     39     30     41     30     30
D179V6, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             2              30
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA1 MUTATED        1      5      6
  PHKA1 WILD-TYPE    149    180    137
D179V7, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             5             180
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PHKA1 MUTATED        1      6      3      0      1      1      0
  PHKA1 WILD-TYPE     71    103     87     44     48     45     68
D179V8, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             6             103
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  PHKA1 MUTATED        3      8      1
  PHKA1 WILD-TYPE    172    203     89
D179V9, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             8             203
  CLUS_3             1              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
  PHKA1 MUTATED        1      6      1      4
  PHKA1 WILD-TYPE     69    180    130     85
D179V10, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             180
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA1 MUTATED        2      7      2
  PHKA1 WILD-TYPE    139    175     87
D179V11, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             7             175
  CLUS_3             2              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
  PHKA1 MUTATED        0     10      1
  PHKA1 WILD-TYPE     94    223     84
D179V12, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             0              94
  CLUS_2            10             223
  CLUS_3             1              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"

Clustering(180) Variable = KRT26 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT26 MUTATED        0      0      0      0
  KRT26 WILD-TYPE      5      7      5      3
D180V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT26 MUTATED        0      0      0
  KRT26 WILD-TYPE      7      9      4
D180V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRT26 MUTATED        0      3      2      4
  KRT26 WILD-TYPE     65    207     70    127
D180V3, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             3             207
  CLUS_3             2              70
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT26 MUTATED        2      5      1
  KRT26 WILD-TYPE    129    133    160
D180V4, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             5             133
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT26 MUTATED        0      1      1
  KRT26 WILD-TYPE     42     70     62
D180V5, multiclass
[1] "Remove cluster labels:" "KRT26 MUTATED"         
clus
  KRT26 MUTATED KRT26 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-6742 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6835 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRT26 MUTATED        0      0      1      1      0
  KRT26 WILD-TYPE     39     32     42     29     32
D180V6, multiclass
[1] "Remove cluster labels:" "KRT26 MUTATED"         
clus
  KRT26 MUTATED KRT26 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-6742 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6835 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"KRT26 WILD-TYPE" "KRT26 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT26 MUTATED        2      5      2
  KRT26 WILD-TYPE    148    180    141
D180V7, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRT26 MUTATED        0      3      2      0      1      2      1
  KRT26 WILD-TYPE     72    106     88     44     48     44     67
D180V8, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             2              44
  CLUS_7             1              67
[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
  KRT26 MUTATED        1      6      2
  KRT26 WILD-TYPE    174    205     88
D180V9, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             2              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
  KRT26 MUTATED        0      7      1      1
  KRT26 WILD-TYPE     70    179    130     88
D180V10, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             179
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KRT26 MUTATED        2      3      3
  KRT26 WILD-TYPE    139    179     86
D180V11, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             3             179
  CLUS_3             3              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
  KRT26 MUTATED        0      8      0
  KRT26 WILD-TYPE     94    225     85
D180V12, multiclass
        clus
vv       KRT26 MUTATED KRT26 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             8             225
  CLUS_3             0              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"

Clustering(181) Variable = CALCRL MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CALCRL MUTATED        0      0      0      0
  CALCRL WILD-TYPE      5      7      5      3
D181V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CALCRL MUTATED        0      0      0
  CALCRL WILD-TYPE      7      9      4
D181V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CALCRL MUTATED        3      2      1      7
  CALCRL WILD-TYPE     62    208     71    124
D181V3, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              3               62
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              7              124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CALCRL MUTATED        1      4      8
  CALCRL WILD-TYPE    130    134    153
D181V4, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              1              130
  CLUS_2              4              134
  CLUS_3              8              153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CALCRL MUTATED        0      1      0
  CALCRL WILD-TYPE     42     70     63
D181V5, multiclass
[1] "Remove cluster labels:" "CALCRL MUTATED"        
clus
  CALCRL MUTATED CALCRL WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4417       TCGA-05-4418 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-05-4420       TCGA-05-4422       TCGA-05-4426       TCGA-05-4430 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-05-5420       TCGA-05-5423       TCGA-05-5429       TCGA-05-5715 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-38-4626       TCGA-38-4627       TCGA-38-6178       TCGA-44-2656 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-2657       TCGA-44-2661       TCGA-44-2665       TCGA-44-3396 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-3919       TCGA-44-4112       TCGA-44-5645       TCGA-44-6145 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-6146       TCGA-44-6147       TCGA-44-6774       TCGA-44-6775 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6779       TCGA-44-7659 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-7662       TCGA-44-7670       TCGA-44-7671       TCGA-44-7672 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-4486       TCGA-49-4487       TCGA-49-4488       TCGA-49-4494 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CALCRL MUTATED        1      0      0      0      0
  CALCRL WILD-TYPE     38     32     43     30     32
D181V6, multiclass
[1] "Remove cluster labels:" "CALCRL MUTATED"        
clus
  CALCRL MUTATED CALCRL WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4417       TCGA-05-4418 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-05-4420       TCGA-05-4422       TCGA-05-4426       TCGA-05-4430 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-05-5420       TCGA-05-5423       TCGA-05-5429       TCGA-05-5715 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-38-4626       TCGA-38-4627       TCGA-38-6178       TCGA-44-2656 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-2657       TCGA-44-2661       TCGA-44-2665       TCGA-44-3396 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-3919       TCGA-44-4112       TCGA-44-5645       TCGA-44-6145 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-6146       TCGA-44-6147       TCGA-44-6774       TCGA-44-6775 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-6776       TCGA-44-6777       TCGA-44-6779       TCGA-44-7659 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-44-7662       TCGA-44-7670       TCGA-44-7671       TCGA-44-7672 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-4486       TCGA-49-4487       TCGA-49-4488       TCGA-49-4494 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"CALCRL WILD-TYPE" "CALCRL WILD-TYPE" "CALCRL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CALCRL MUTATED        3      5      5
  CALCRL WILD-TYPE    147    180    138
D181V7, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              3              147
  CLUS_2              5              180
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CALCRL MUTATED        0      4      3      0      2      1      3
  CALCRL WILD-TYPE     72    105     87     44     47     45     65
D181V8, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              0               72
  CLUS_2              4              105
  CLUS_3              3               87
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              1               45
  CLUS_7              3               65
[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
  CALCRL MUTATED        3     10      0
  CALCRL WILD-TYPE    172    201     90
D181V9, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              3              172
  CLUS_2             10              201
  CLUS_3              0               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
  CALCRL MUTATED        0      5      3      5
  CALCRL WILD-TYPE     70    181    128     84
D181V10, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              181
  CLUS_3              3              128
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CALCRL MUTATED        3      7      2
  CALCRL WILD-TYPE    138    175     87
D181V11, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              3              138
  CLUS_2              7              175
  CLUS_3              2               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
  CALCRL MUTATED        0     11      1
  CALCRL WILD-TYPE     94    222     84
D181V12, multiclass
        clus
vv       CALCRL MUTATED CALCRL WILD-TYPE
  CLUS_1              0               94
  CLUS_2             11              222
  CLUS_3              1               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"

Clustering(182) Variable = STRN3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STRN3 MUTATED        0      0      0      0
  STRN3 WILD-TYPE      5      7      5      3
D182V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRN3 MUTATED        0      0      0
  STRN3 WILD-TYPE      7      9      4
D182V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STRN3 MUTATED        1      5      1      3
  STRN3 WILD-TYPE     64    205     71    128
D182V3, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRN3 MUTATED        2      4      4
  STRN3 WILD-TYPE    129    134    157
D182V4, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             4             134
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRN3 MUTATED        0      1      4
  STRN3 WILD-TYPE     42     70     59
D182V5, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             4              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 CLUS_4 CLUS_5
  STRN3 MUTATED        0      1      2      1      1
  STRN3 WILD-TYPE     39     31     41     29     31
D182V6, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRN3 MUTATED        1      7      2
  STRN3 WILD-TYPE    149    178    141
D182V7, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             7             178
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STRN3 MUTATED        0      3      3      2      0      1      1
  STRN3 WILD-TYPE     72    106     87     42     49     45     67
D182V8, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             3              87
  CLUS_4             2              42
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  STRN3 MUTATED        5      5      0
  STRN3 WILD-TYPE    170    206     90
D182V9, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             5             170
  CLUS_2             5             206
  CLUS_3             0              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
  STRN3 MUTATED        1      3      3      3
  STRN3 WILD-TYPE     69    183    128     86
D182V10, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             183
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRN3 MUTATED        5      2      3
  STRN3 WILD-TYPE    136    180     86
D182V11, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             5             136
  CLUS_2             2             180
  CLUS_3             3              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
  STRN3 MUTATED        2      6      2
  STRN3 WILD-TYPE     92    227     83
D182V12, multiclass
        clus
vv       STRN3 MUTATED STRN3 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             6             227
  CLUS_3             2              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"

Clustering(183) Variable = RPS16 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPS16 MUTATED        0      0      0      0
  RPS16 WILD-TYPE      5      7      5      3
D183V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPS16 MUTATED        0      0      0
  RPS16 WILD-TYPE      7      9      4
D183V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPS16 MUTATED        0      0      1      2
  RPS16 WILD-TYPE     65    210     71    129
D183V3, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             0             210
  CLUS_3             1              71
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPS16 MUTATED        0      1      2
  RPS16 WILD-TYPE    131    137    159
D183V4, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             1             137
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPS16 MUTATED        0      1      0
  RPS16 WILD-TYPE     42     70     63
D183V5, multiclass
[1] "Remove cluster labels:" "RPS16 MUTATED"         
clus
  RPS16 MUTATED RPS16 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPS16 MUTATED        0      0      1      0      0
  RPS16 WILD-TYPE     39     32     42     30     32
D183V6, multiclass
[1] "Remove cluster labels:" "RPS16 MUTATED"         
clus
  RPS16 MUTATED RPS16 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"RPS16 WILD-TYPE" "RPS16 WILD-TYPE" "RPS16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPS16 MUTATED        0      3      0
  RPS16 WILD-TYPE    150    182    143
D183V7, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             3             182
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RPS16 MUTATED        0      1      1      0      0      1      0
  RPS16 WILD-TYPE     72    108     89     44     49     45     68
D183V8, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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
  RPS16 MUTATED        1      2      0
  RPS16 WILD-TYPE    174    209     90
D183V9, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             2             209
  CLUS_3             0              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
  RPS16 MUTATED        0      2      0      1
  RPS16 WILD-TYPE     70    184    131     88
D183V10, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             0             131
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RPS16 MUTATED        2      1      0
  RPS16 WILD-TYPE    139    181     89
D183V11, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             1             181
  CLUS_3             0              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
  RPS16 MUTATED        0      2      1
  RPS16 WILD-TYPE     94    231     84
D183V12, multiclass
        clus
vv       RPS16 MUTATED RPS16 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             2             231
  CLUS_3             1              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"

Clustering(184) Variable = NPR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NPR1 MUTATED        0      0      0      0
  NPR1 WILD-TYPE      5      7      5      3
D184V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NPR1 MUTATED        0      0      0
  NPR1 WILD-TYPE      7      9      4
D184V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NPR1 MUTATED        2      3      3      6
  NPR1 WILD-TYPE     63    207     69    125
D184V3, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3            207
  CLUS_3            3             69
  CLUS_4            6            125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NPR1 MUTATED        2      6      4
  NPR1 WILD-TYPE    129    132    157
D184V4, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            6            132
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NPR1 MUTATED        1      2      3
  NPR1 WILD-TYPE     41     69     60
D184V5, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            3             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
  NPR1 MUTATED        0      0      3      1      2
  NPR1 WILD-TYPE     39     32     40     29     30
D184V6, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NPR1 MUTATED        2      9      3
  NPR1 WILD-TYPE    148    176    140
D184V7, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            9            176
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NPR1 MUTATED        1      4      5      0      2      1      1
  NPR1 WILD-TYPE     71    105     85     44     47     45     67
D184V8, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            4            105
  CLUS_3            5             85
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            1             67
[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
  NPR1 MUTATED        2     10      1
  NPR1 WILD-TYPE    173    201     89
D184V9, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            2            173
  CLUS_2           10            201
  CLUS_3            1             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
  NPR1 MUTATED        0      6      2      5
  NPR1 WILD-TYPE     70    180    129     84
D184V10, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            180
  CLUS_3            2            129
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NPR1 MUTATED        3      7      2
  NPR1 WILD-TYPE    138    175     87
D184V11, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            7            175
  CLUS_3            2             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
  NPR1 MUTATED        0     11      1
  NPR1 WILD-TYPE     94    222     84
D184V12, multiclass
        clus
vv       NPR1 MUTATED NPR1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2           11            222
  CLUS_3            1             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"

Clustering(185) Variable = KARS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KARS MUTATED        0      0      0      0
  KARS WILD-TYPE      5      7      5      3
D185V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KARS MUTATED        0      0      0
  KARS WILD-TYPE      7      9      4
D185V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KARS MUTATED        1      2      3      1
  KARS WILD-TYPE     64    208     69    130
D185V3, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            1             64
  CLUS_2            2            208
  CLUS_3            3             69
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KARS MUTATED        1      5      1
  KARS WILD-TYPE    130    133    160
D185V4, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            1            130
  CLUS_2            5            133
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KARS MUTATED        0      0      1
  KARS WILD-TYPE     42     71     62
D185V5, multiclass
[1] "Remove cluster labels:" "KARS MUTATED"          
clus
  KARS MUTATED KARS WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7671     TCGA-44-7672 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KARS MUTATED        0      0      0      1      0
  KARS WILD-TYPE     39     32     43     29     32
D185V6, multiclass
[1] "Remove cluster labels:" "KARS MUTATED"          
clus
  KARS MUTATED KARS WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7671     TCGA-44-7672 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"KARS WILD-TYPE" "KARS WILD-TYPE" "KARS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KARS MUTATED        1      4      2
  KARS WILD-TYPE    149    181    141
D185V7, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            1            149
  CLUS_2            4            181
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KARS MUTATED        0      2      3      0      0      2      0
  KARS WILD-TYPE     72    107     87     44     49     44     68
D185V8, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            2             44
  CLUS_7            0             68
[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
  KARS MUTATED        0      6      1
  KARS WILD-TYPE    175    205     89
D185V9, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            0            175
  CLUS_2            6            205
  CLUS_3            1             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
  KARS MUTATED        0      4      0      3
  KARS WILD-TYPE     70    182    131     86
D185V10, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            182
  CLUS_3            0            131
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KARS MUTATED        2      4      1
  KARS WILD-TYPE    139    178     88
D185V11, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            2            139
  CLUS_2            4            178
  CLUS_3            1             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
  KARS MUTATED        0      7      0
  KARS WILD-TYPE     94    226     85
D185V12, multiclass
        clus
vv       KARS MUTATED KARS WILD-TYPE
  CLUS_1            0             94
  CLUS_2            7            226
  CLUS_3            0             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"

Clustering(186) Variable = FRMD6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRMD6 MUTATED        0      0      0      0
  FRMD6 WILD-TYPE      5      7      5      3
D186V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        0      0      0
  FRMD6 WILD-TYPE      7      9      4
D186V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRMD6 MUTATED        2      4      2      6
  FRMD6 WILD-TYPE     63    206     70    125
D186V3, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4             206
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        2      3      7
  FRMD6 WILD-TYPE    129    135    154
D186V4, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             3             135
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        1      1      3
  FRMD6 WILD-TYPE     41     70     60
D186V5, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             3              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
  FRMD6 MUTATED        0      1      1      2      1
  FRMD6 WILD-TYPE     39     31     42     28     31
D186V6, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             2              28
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        2      9      3
  FRMD6 WILD-TYPE    148    176    140
D186V7, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             9             176
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FRMD6 MUTATED        0      6      2      0      3      2      1
  FRMD6 WILD-TYPE     72    103     88     44     46     44     67
D186V8, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             6             103
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             2              44
  CLUS_7             1              67
[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
  FRMD6 MUTATED        2      9      3
  FRMD6 WILD-TYPE    173    202     87
D186V9, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             9             202
  CLUS_3             3              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
  FRMD6 MUTATED        1      8      1      4
  FRMD6 WILD-TYPE     69    178    130     85
D186V10, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             8             178
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FRMD6 MUTATED        4      4      4
  FRMD6 WILD-TYPE    137    178     85
D186V11, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             4             178
  CLUS_3             4              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
  FRMD6 MUTATED        0      8      4
  FRMD6 WILD-TYPE     94    225     81
D186V12, multiclass
        clus
vv       FRMD6 MUTATED FRMD6 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             8             225
  CLUS_3             4              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"

Clustering(187) Variable = TMC4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMC4 MUTATED        0      0      0      0
  TMC4 WILD-TYPE      5      7      5      3
D187V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC4 MUTATED        0      0      0
  TMC4 WILD-TYPE      7      9      4
D187V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMC4 MUTATED        2      3      2      3
  TMC4 WILD-TYPE     63    207     70    128
D187V3, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3            207
  CLUS_3            2             70
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC4 MUTATED        1      4      5
  TMC4 WILD-TYPE    130    134    156
D187V4, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            4            134
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC4 MUTATED        0      1      1
  TMC4 WILD-TYPE     42     70     62
D187V5, multiclass
[1] "Remove cluster labels:" "TMC4 MUTATED"          
clus
  TMC4 MUTATED TMC4 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-97-7546     TCGA-97-7552 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMC4 MUTATED        2      0      0      0      0
  TMC4 WILD-TYPE     37     32     43     30     32
D187V6, multiclass
[1] "Remove cluster labels:" "TMC4 MUTATED"          
clus
  TMC4 MUTATED TMC4 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-97-7546     TCGA-97-7552 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"TMC4 WILD-TYPE" "TMC4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC4 MUTATED        1      6      3
  TMC4 WILD-TYPE    149    179    140
D187V7, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            6            179
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TMC4 MUTATED        1      3      2      0      2      2      0
  TMC4 WILD-TYPE     71    106     88     44     47     44     68
D187V8, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            2             44
  CLUS_7            0             68
[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
  TMC4 MUTATED        2      8      0
  TMC4 WILD-TYPE    173    203     90
D187V9, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            8            203
  CLUS_3            0             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
  TMC4 MUTATED        0      6      2      2
  TMC4 WILD-TYPE     70    180    129     87
D187V10, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            180
  CLUS_3            2            129
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TMC4 MUTATED        5      4      0
  TMC4 WILD-TYPE    136    178     89
D187V11, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            5            136
  CLUS_2            4            178
  CLUS_3            0             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
  TMC4 MUTATED        0      7      2
  TMC4 WILD-TYPE     94    226     83
D187V12, multiclass
        clus
vv       TMC4 MUTATED TMC4 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            7            226
  CLUS_3            2             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"

Clustering(188) Variable = ARMC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARMC3 MUTATED        0      1      0      1
  ARMC3 WILD-TYPE      5      6      5      2
D188V1, multiclass
[1] "Remove cluster labels:" "ARMC3 MUTATED"         
clus
  ARMC3 MUTATED ARMC3 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC3 MUTATED        0      1      1
  ARMC3 WILD-TYPE      7      8      3
D188V2, multiclass
[1] "Remove cluster labels:" "ARMC3 MUTATED"         
clus
  ARMC3 MUTATED ARMC3 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ARMC3 WILD-TYPE" "ARMC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARMC3 MUTATED        4      7      1     10
  ARMC3 WILD-TYPE     61    203     71    121
D188V3, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             7             203
  CLUS_3             1              71
  CLUS_4            10             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC3 MUTATED        5      6      6
  ARMC3 WILD-TYPE    126    132    155
D188V4, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             5             126
  CLUS_2             6             132
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC3 MUTATED        2      1      4
  ARMC3 WILD-TYPE     40     70     59
D188V5, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             4              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 CLUS_4 CLUS_5
  ARMC3 MUTATED        2      0      2      2      1
  ARMC3 WILD-TYPE     37     32     41     28     31
D188V6, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             2              28
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC3 MUTATED        6     10      6
  ARMC3 WILD-TYPE    144    175    137
D188V7, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             6             144
  CLUS_2            10             175
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARMC3 MUTATED        4      5      6      1      4      0      2
  ARMC3 WILD-TYPE     68    104     84     43     45     46     66
D188V8, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             4              68
  CLUS_2             5             104
  CLUS_3             6              84
  CLUS_4             1              43
  CLUS_5             4              45
  CLUS_6             0              46
  CLUS_7             2              66
[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
  ARMC3 MUTATED        4     13      4
  ARMC3 WILD-TYPE    171    198     86
D188V9, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             4             171
  CLUS_2            13             198
  CLUS_3             4              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
  ARMC3 MUTATED        2      9      4      6
  ARMC3 WILD-TYPE     68    177    127     83
D188V10, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             9             177
  CLUS_3             4             127
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARMC3 MUTATED        6      9      2
  ARMC3 WILD-TYPE    135    173     87
D188V11, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             6             135
  CLUS_2             9             173
  CLUS_3             2              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
  ARMC3 MUTATED        2     10      5
  ARMC3 WILD-TYPE     92    223     80
D188V12, multiclass
        clus
vv       ARMC3 MUTATED ARMC3 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            10             223
  CLUS_3             5              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"

Clustering(189) Variable = PIK3R4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R4 MUTATED        0      1      1      0
  PIK3R4 WILD-TYPE      5      6      4      3
D189V1, multiclass
[1] "Remove cluster labels:" "PIK3R4 MUTATED"        
clus
  PIK3R4 MUTATED PIK3R4 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2661       TCGA-44-2665 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1677       TCGA-67-3771 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        1      1      0
  PIK3R4 WILD-TYPE      6      8      4
D189V2, multiclass
[1] "Remove cluster labels:" "PIK3R4 MUTATED"        
clus
  PIK3R4 MUTATED PIK3R4 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2661       TCGA-44-2665 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1677       TCGA-67-3771 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"PIK3R4 WILD-TYPE" "PIK3R4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R4 MUTATED        0      7      7      6
  PIK3R4 WILD-TYPE     65    203     65    125
D189V3, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              0               65
  CLUS_2              7              203
  CLUS_3              7               65
  CLUS_4              6              125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        3      9      5
  PIK3R4 WILD-TYPE    128    129    156
D189V4, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              9              129
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        1      2      3
  PIK3R4 WILD-TYPE     41     69     60
D189V5, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2               69
  CLUS_3              3               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
  PIK3R4 MUTATED        0      1      2      1      2
  PIK3R4 WILD-TYPE     39     31     41     29     30
D189V6, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        3     12      5
  PIK3R4 WILD-TYPE    147    173    138
D189V7, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              3              147
  CLUS_2             12              173
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3R4 MUTATED        1      4      7      1      1      4      2
  PIK3R4 WILD-TYPE     71    105     83     43     48     42     66
D189V8, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              4              105
  CLUS_3              7               83
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              4               42
  CLUS_7              2               66
[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
  PIK3R4 MUTATED        2     15      2
  PIK3R4 WILD-TYPE    173    196     88
D189V9, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              2              173
  CLUS_2             15              196
  CLUS_3              2               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
  PIK3R4 MUTATED        1     11      3      4
  PIK3R4 WILD-TYPE     69    175    128     85
D189V10, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              1               69
  CLUS_2             11              175
  CLUS_3              3              128
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R4 MUTATED        4      8      5
  PIK3R4 WILD-TYPE    137    174     84
D189V11, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              8              174
  CLUS_3              5               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
  PIK3R4 MUTATED        2     13      2
  PIK3R4 WILD-TYPE     92    220     83
D189V12, multiclass
        clus
vv       PIK3R4 MUTATED PIK3R4 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             13              220
  CLUS_3              2               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"

Clustering(190) Variable = ESRP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESRP1 MUTATED        0      0      0      0
  ESRP1 WILD-TYPE      5      7      5      3
D190V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP1 MUTATED        0      0      0
  ESRP1 WILD-TYPE      7      9      4
D190V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESRP1 MUTATED        1      1      2      4
  ESRP1 WILD-TYPE     64    209     70    127
D190V3, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             1             209
  CLUS_3             2              70
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP1 MUTATED        1      4      3
  ESRP1 WILD-TYPE    130    134    158
D190V4, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             4             134
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP1 MUTATED        1      1      1
  ESRP1 WILD-TYPE     41     70     62
D190V5, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ESRP1 MUTATED        0      0      2      0      1
  ESRP1 WILD-TYPE     39     32     41     30     31
D190V6, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP1 MUTATED        0      6      2
  ESRP1 WILD-TYPE    150    179    141
D190V7, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             6             179
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ESRP1 MUTATED        0      1      5      0      1      1      0
  ESRP1 WILD-TYPE     72    108     85     44     48     45     68
D190V8, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             5              85
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  ESRP1 MUTATED        1      7      0
  ESRP1 WILD-TYPE    174    204     90
D190V9, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             7             204
  CLUS_3             0              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
  ESRP1 MUTATED        0      4      1      3
  ESRP1 WILD-TYPE     70    182    130     86
D190V10, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             1             130
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESRP1 MUTATED        1      6      1
  ESRP1 WILD-TYPE    140    176     88
D190V11, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             6             176
  CLUS_3             1              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
  ESRP1 MUTATED        0      8      0
  ESRP1 WILD-TYPE     94    225     85
D190V12, multiclass
        clus
vv       ESRP1 MUTATED ESRP1 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             8             225
  CLUS_3             0              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"

Clustering(191) Variable = GRN MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRN MUTATED        0      0      0      0
  GRN WILD-TYPE      5      7      5      3
D191V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GRN MUTATED        0      0      0
  GRN WILD-TYPE      7      9      4
D191V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRN MUTATED        0      1      2      3
  GRN WILD-TYPE     65    209     70    128
D191V3, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           0            65
  CLUS_2           1           209
  CLUS_3           2            70
  CLUS_4           3           128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GRN MUTATED        1      1      4
  GRN WILD-TYPE    130    137    157
D191V4, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           1           130
  CLUS_2           1           137
  CLUS_3           4           157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GRN MUTATED        0      0      0
  GRN WILD-TYPE     42     71     63
D191V5, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRN MUTATED        0      0      0      0      0
  GRN WILD-TYPE     39     32     43     30     32
D191V6, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GRN MUTATED        1      4      1
  GRN WILD-TYPE    149    181    142
D191V7, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           1           149
  CLUS_2           4           181
  CLUS_3           1           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GRN MUTATED        0      2      1      0      1      1      1
  GRN WILD-TYPE     72    107     89     44     48     45     67
D191V8, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           0            72
  CLUS_2           2           107
  CLUS_3           1            89
  CLUS_4           0            44
  CLUS_5           1            48
  CLUS_6           1            45
  CLUS_7           1            67
[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
  GRN MUTATED        2      4      0
  GRN WILD-TYPE    173    207     90
D191V9, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           2           173
  CLUS_2           4           207
  CLUS_3           0            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
  GRN MUTATED        3      2      0      1
  GRN WILD-TYPE     67    184    131     88
D191V10, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           3            67
  CLUS_2           2           184
  CLUS_3           0           131
  CLUS_4           1            88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GRN MUTATED        3      3      0
  GRN WILD-TYPE    138    179     89
D191V11, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           3           138
  CLUS_2           3           179
  CLUS_3           0            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
  GRN MUTATED        2      3      1
  GRN WILD-TYPE     92    230     84
D191V12, multiclass
        clus
vv       GRN MUTATED GRN WILD-TYPE
  CLUS_1           2            92
  CLUS_2           3           230
  CLUS_3           1            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"

Clustering(192) Variable = CYTH4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYTH4 MUTATED        0      0      0      0
  CYTH4 WILD-TYPE      5      7      5      3
D192V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTH4 MUTATED        0      0      0
  CYTH4 WILD-TYPE      7      9      4
D192V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYTH4 MUTATED        0      4      1      0
  CYTH4 WILD-TYPE     65    206     71    131
D192V3, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             1              71
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTH4 MUTATED        2      2      1
  CYTH4 WILD-TYPE    129    136    160
D192V4, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTH4 MUTATED        0      0      2
  CYTH4 WILD-TYPE     42     71     61
D192V5, multiclass
[1] "Remove cluster labels:" "CYTH4 MUTATED"         
clus
  CYTH4 MUTATED CYTH4 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7154 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-91-7771      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYTH4 MUTATED        0      1      0      0      1
  CYTH4 WILD-TYPE     39     31     43     30     31
D192V6, multiclass
[1] "Remove cluster labels:" "CYTH4 MUTATED"         
clus
  CYTH4 MUTATED CYTH4 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7154 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-91-7771      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"CYTH4 WILD-TYPE" "CYTH4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTH4 MUTATED        2      0      3
  CYTH4 WILD-TYPE    148    185    140
D192V7, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             0             185
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CYTH4 MUTATED        1      0      1      2      0      0      1
  CYTH4 WILD-TYPE     71    109     89     42     49     46     67
D192V8, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             0             109
  CLUS_3             1              89
  CLUS_4             2              42
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             1              67
[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
  CYTH4 MUTATED        3      1      1
  CYTH4 WILD-TYPE    172    210     89
D192V9, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             1             210
  CLUS_3             1              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
  CYTH4 MUTATED        1      2      2      0
  CYTH4 WILD-TYPE     69    184    129     89
D192V10, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             2             129
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CYTH4 MUTATED        0      1      2
  CYTH4 WILD-TYPE    141    181     87
D192V11, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             1             181
  CLUS_3             2              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
  CYTH4 MUTATED        1      1      1
  CYTH4 WILD-TYPE     93    232     84
D192V12, multiclass
        clus
vv       CYTH4 MUTATED CYTH4 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             1             232
  CLUS_3             1              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"

Clustering(193) Variable = SEC23IP MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEC23IP MUTATED        1      0      0      0
  SEC23IP WILD-TYPE      4      7      5      3
D193V1, multiclass
[1] "Remove cluster labels:" "SEC23IP MUTATED"       
clus
  SEC23IP MUTATED SEC23IP WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        0      1      0
  SEC23IP WILD-TYPE      7      8      4
D193V2, multiclass
[1] "Remove cluster labels:" "SEC23IP MUTATED"       
clus
  SEC23IP MUTATED SEC23IP WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" "SEC23IP WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEC23IP MUTATED        1      2      1      5
  SEC23IP WILD-TYPE     64    208     71    126
D193V3, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               1                64
  CLUS_2               2               208
  CLUS_3               1                71
  CLUS_4               5               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        0      5      3
  SEC23IP WILD-TYPE    131    133    158
D193V4, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               0               131
  CLUS_2               5               133
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        0      0      0
  SEC23IP WILD-TYPE     42     71     63
D193V5, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEC23IP MUTATED        0      0      0      0      0
  SEC23IP WILD-TYPE     39     32     43     30     32
D193V6, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        1      5      2
  SEC23IP WILD-TYPE    149    180    141
D193V7, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               1               149
  CLUS_2               5               180
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SEC23IP MUTATED        1      1      4      0      1      0      1
  SEC23IP WILD-TYPE     71    108     86     44     48     46     67
D193V8, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               1                71
  CLUS_2               1               108
  CLUS_3               4                86
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               0                46
  CLUS_7               1                67
[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
  SEC23IP MUTATED        1      5      3
  SEC23IP WILD-TYPE    174    206     87
D193V9, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               1               174
  CLUS_2               5               206
  CLUS_3               3                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
  SEC23IP MUTATED        1      4      1      3
  SEC23IP WILD-TYPE     69    182    130     86
D193V10, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               1                69
  CLUS_2               4               182
  CLUS_3               1               130
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SEC23IP MUTATED        3      3      2
  SEC23IP WILD-TYPE    138    179     87
D193V11, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               3               138
  CLUS_2               3               179
  CLUS_3               2                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
  SEC23IP MUTATED        2      4      2
  SEC23IP WILD-TYPE     92    229     83
D193V12, multiclass
        clus
vv       SEC23IP MUTATED SEC23IP WILD-TYPE
  CLUS_1               2                92
  CLUS_2               4               229
  CLUS_3               2                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"

Clustering(194) Variable = LARP4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARP4 MUTATED        0      0      0      0
  LARP4 WILD-TYPE      5      7      5      3
D194V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP4 MUTATED        0      0      0
  LARP4 WILD-TYPE      7      9      4
D194V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARP4 MUTATED        3      2      0      4
  LARP4 WILD-TYPE     62    208     72    127
D194V3, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP4 MUTATED        0      3      4
  LARP4 WILD-TYPE    131    135    157
D194V4, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP4 MUTATED        0      1      2
  LARP4 WILD-TYPE     42     70     61
D194V5, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             2              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
  LARP4 MUTATED        0      1      2      0      0
  LARP4 WILD-TYPE     39     31     41     30     32
D194V6, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP4 MUTATED        0      5      4
  LARP4 WILD-TYPE    150    180    139
D194V7, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             5             180
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LARP4 MUTATED        0      2      3      1      1      2      0
  LARP4 WILD-TYPE     72    107     87     43     48     44     68
D194V8, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             2              44
  CLUS_7             0              68
[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
  LARP4 MUTATED        1      4      3
  LARP4 WILD-TYPE    174    207     87
D194V9, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             4             207
  CLUS_3             3              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
  LARP4 MUTATED        0      6      0      2
  LARP4 WILD-TYPE     70    180    131     87
D194V10, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             180
  CLUS_3             0             131
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP4 MUTATED        0      3      4
  LARP4 WILD-TYPE    141    179     85
D194V11, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             3             179
  CLUS_3             4              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
  LARP4 MUTATED        0      5      2
  LARP4 WILD-TYPE     94    228     83
D194V12, multiclass
        clus
vv       LARP4 MUTATED LARP4 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             2              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"

Clustering(195) Variable = SLAMF8 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLAMF8 MUTATED        0      1      0      0
  SLAMF8 WILD-TYPE      5      6      5      3
D195V1, multiclass
[1] "Remove cluster labels:" "SLAMF8 MUTATED"        
clus
  SLAMF8 MUTATED SLAMF8 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF8 MUTATED        0      1      0
  SLAMF8 WILD-TYPE      7      8      4
D195V2, multiclass
[1] "Remove cluster labels:" "SLAMF8 MUTATED"        
clus
  SLAMF8 MUTATED SLAMF8 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLAMF8 MUTATED        0      4      1      4
  SLAMF8 WILD-TYPE     65    206     71    127
D195V3, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              0               65
  CLUS_2              4              206
  CLUS_3              1               71
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF8 MUTATED        1      2      6
  SLAMF8 WILD-TYPE    130    136    155
D195V4, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              2              136
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF8 MUTATED        1      0      0
  SLAMF8 WILD-TYPE     41     71     63
D195V5, multiclass
[1] "Remove cluster labels:" "SLAMF8 MUTATED"        
clus
  SLAMF8 MUTATED SLAMF8 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-80-5607       TCGA-80-5608 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7713       TCGA-91-6828 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-91-6829       TCGA-91-6835       TCGA-91-6840       TCGA-91-6847 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-91-6849       TCGA-91-7771       TCGA-93-7348       TCGA-95-7039 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-95-7043       TCGA-95-7567       TCGA-95-7948       TCGA-97-7546 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF8 MUTATED        0      0      0      1      0
  SLAMF8 WILD-TYPE     39     32     43     29     32
D195V6, multiclass
[1] "Remove cluster labels:" "SLAMF8 MUTATED"        
clus
  SLAMF8 MUTATED SLAMF8 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-80-5607       TCGA-80-5608 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7713       TCGA-91-6828 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-91-6829       TCGA-91-6835       TCGA-91-6840       TCGA-91-6847 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-91-6849       TCGA-91-7771       TCGA-93-7348       TCGA-95-7039 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-95-7043       TCGA-95-7567       TCGA-95-7948       TCGA-97-7546 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" "SLAMF8 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF8 MUTATED        2      6      1
  SLAMF8 WILD-TYPE    148    179    142
D195V7, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              6              179
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLAMF8 MUTATED        0      4      2      0      0      2      1
  SLAMF8 WILD-TYPE     72    105     88     44     49     44     67
D195V8, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              4              105
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              1               67
[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
  SLAMF8 MUTATED        4      4      1
  SLAMF8 WILD-TYPE    171    207     89
D195V9, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              4              207
  CLUS_3              1               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
  SLAMF8 MUTATED        2      5      2      0
  SLAMF8 WILD-TYPE     68    181    129     89
D195V10, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              181
  CLUS_3              2              129
  CLUS_4              0               89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF8 MUTATED        2      5      1
  SLAMF8 WILD-TYPE    139    177     88
D195V11, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              5              177
  CLUS_3              1               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
  SLAMF8 MUTATED        2      6      0
  SLAMF8 WILD-TYPE     92    227     85
D195V12, multiclass
        clus
vv       SLAMF8 MUTATED SLAMF8 WILD-TYPE
  CLUS_1              2               92
  CLUS_2              6              227
  CLUS_3              0               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"

Clustering(196) Variable = IGDCC4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGDCC4 MUTATED        0      1      0      1
  IGDCC4 WILD-TYPE      5      6      5      2
D196V1, multiclass
[1] "Remove cluster labels:" "IGDCC4 MUTATED"        
clus
  IGDCC4 MUTATED IGDCC4 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4123 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGDCC4 MUTATED        0      1      1
  IGDCC4 WILD-TYPE      7      8      3
D196V2, multiclass
[1] "Remove cluster labels:" "IGDCC4 MUTATED"        
clus
  IGDCC4 MUTATED IGDCC4 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4123 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"IGDCC4 WILD-TYPE" "IGDCC4 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IGDCC4 MUTATED        3      7      9      5
  IGDCC4 WILD-TYPE     62    203     63    126
D196V3, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              3               62
  CLUS_2              7              203
  CLUS_3              9               63
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGDCC4 MUTATED        3      9      6
  IGDCC4 WILD-TYPE    128    129    155
D196V4, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              9              129
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGDCC4 MUTATED        1      3      3
  IGDCC4 WILD-TYPE     41     68     60
D196V5, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3               68
  CLUS_3              3               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
  IGDCC4 MUTATED        0      2      2      2      1
  IGDCC4 WILD-TYPE     39     30     41     28     31
D196V6, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              2               30
  CLUS_3              2               41
  CLUS_4              2               28
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGDCC4 MUTATED        4     12      8
  IGDCC4 WILD-TYPE    146    173    135
D196V7, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              4              146
  CLUS_2             12              173
  CLUS_3              8              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IGDCC4 MUTATED        1      5      6      2      1      5      4
  IGDCC4 WILD-TYPE     71    104     84     42     48     41     64
D196V8, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              5              104
  CLUS_3              6               84
  CLUS_4              2               42
  CLUS_5              1               48
  CLUS_6              5               41
  CLUS_7              4               64
[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
  IGDCC4 MUTATED        5     15      3
  IGDCC4 WILD-TYPE    170    196     87
D196V9, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              5              170
  CLUS_2             15              196
  CLUS_3              3               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
  IGDCC4 MUTATED        2      9      3      9
  IGDCC4 WILD-TYPE     68    177    128     80
D196V10, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              9              177
  CLUS_3              3              128
  CLUS_4              9               80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  IGDCC4 MUTATED        4     10      4
  IGDCC4 WILD-TYPE    137    172     85
D196V11, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              4              137
  CLUS_2             10              172
  CLUS_3              4               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
  IGDCC4 MUTATED        2     14      2
  IGDCC4 WILD-TYPE     92    219     83
D196V12, multiclass
        clus
vv       IGDCC4 MUTATED IGDCC4 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             14              219
  CLUS_3              2               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"

Clustering(197) Variable = NPBWR2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NPBWR2 MUTATED        0      0      0      0
  NPBWR2 WILD-TYPE      5      7      5      3
D197V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NPBWR2 MUTATED        0      0      0
  NPBWR2 WILD-TYPE      7      9      4
D197V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NPBWR2 MUTATED        0      2      1      5
  NPBWR2 WILD-TYPE     65    208     71    126
D197V3, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              0               65
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NPBWR2 MUTATED        3      4      1
  NPBWR2 WILD-TYPE    128    134    160
D197V4, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              4              134
  CLUS_3              1              160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NPBWR2 MUTATED        0      1      0
  NPBWR2 WILD-TYPE     42     70     63
D197V5, multiclass
[1] "Remove cluster labels:" "NPBWR2 MUTATED"        
clus
  NPBWR2 MUTATED NPBWR2 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-64-5778       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NPBWR2 MUTATED        0      0      0      1      0
  NPBWR2 WILD-TYPE     39     32     43     29     32
D197V6, multiclass
[1] "Remove cluster labels:" "NPBWR2 MUTATED"        
clus
  NPBWR2 MUTATED NPBWR2 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-64-5778       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" "NPBWR2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NPBWR2 MUTATED        0      4      3
  NPBWR2 WILD-TYPE    150    181    140
D197V7, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              4              181
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NPBWR2 MUTATED        0      1      4      0      0      2      0
  NPBWR2 WILD-TYPE     72    108     86     44     49     44     68
D197V8, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              4               86
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              0               68
[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
  NPBWR2 MUTATED        1      5      2
  NPBWR2 WILD-TYPE    174    206     88
D197V9, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              5              206
  CLUS_3              2               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
  NPBWR2 MUTATED        1      4      0      3
  NPBWR2 WILD-TYPE     69    182    131     86
D197V10, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              182
  CLUS_3              0              131
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NPBWR2 MUTATED        1      6      1
  NPBWR2 WILD-TYPE    140    176     88
D197V11, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              1              140
  CLUS_2              6              176
  CLUS_3              1               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
  NPBWR2 MUTATED        0      7      1
  NPBWR2 WILD-TYPE     94    226     84
D197V12, multiclass
        clus
vv       NPBWR2 MUTATED NPBWR2 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              7              226
  CLUS_3              1               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"

Clustering(198) Variable = FLRT3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLRT3 MUTATED        0      0      0      0
  FLRT3 WILD-TYPE      5      7      5      3
D198V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FLRT3 MUTATED        0      0      0
  FLRT3 WILD-TYPE      7      9      4
D198V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLRT3 MUTATED        1      3      1      3
  FLRT3 WILD-TYPE     64    207     71    128
D198V3, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             3             207
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FLRT3 MUTATED        2      3      3
  FLRT3 WILD-TYPE    129    135    158
D198V4, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FLRT3 MUTATED        1      0      3
  FLRT3 WILD-TYPE     41     71     60
D198V5, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0              71
  CLUS_3             3              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
  FLRT3 MUTATED        0      0      1      0      3
  FLRT3 WILD-TYPE     39     32     42     30     29
D198V6, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FLRT3 MUTATED        2      3      3
  FLRT3 WILD-TYPE    148    182    140
D198V7, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             3             182
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FLRT3 MUTATED        2      2      2      0      1      1      0
  FLRT3 WILD-TYPE     70    107     88     44     48     45     68
D198V8, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  FLRT3 MUTATED        2      5      1
  FLRT3 WILD-TYPE    173    206     89
D198V9, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             5             206
  CLUS_3             1              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
  FLRT3 MUTATED        2      3      1      2
  FLRT3 WILD-TYPE     68    183    130     87
D198V10, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FLRT3 MUTATED        4      3      0
  FLRT3 WILD-TYPE    137    179     89
D198V11, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             3             179
  CLUS_3             0              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
  FLRT3 MUTATED        0      4      3
  FLRT3 WILD-TYPE     94    229     82
D198V12, multiclass
        clus
vv       FLRT3 MUTATED FLRT3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             4             229
  CLUS_3             3              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"

Clustering(199) Variable = MYO1G MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1G MUTATED        1      1      0      0
  MYO1G WILD-TYPE      4      6      5      3
D199V1, multiclass
[1] "Remove cluster labels:" "MYO1G MUTATED"         
clus
  MYO1G MUTATED MYO1G WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1G MUTATED        1      1      0
  MYO1G WILD-TYPE      6      8      4
D199V2, multiclass
[1] "Remove cluster labels:" "MYO1G MUTATED"         
clus
  MYO1G MUTATED MYO1G WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"MYO1G WILD-TYPE" "MYO1G WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1G MUTATED        0      2      5      5
  MYO1G WILD-TYPE     65    208     67    126
D199V3, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             5              67
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1G MUTATED        3      5      3
  MYO1G WILD-TYPE    128    133    158
D199V4, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             3             128
  CLUS_2             5             133
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1G MUTATED        1      1      1
  MYO1G WILD-TYPE     41     70     62
D199V5, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MYO1G MUTATED        1      1      1      0      0
  MYO1G WILD-TYPE     38     31     42     30     32
D199V6, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1G MUTATED        2      8      1
  MYO1G WILD-TYPE    148    177    142
D199V7, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             2             148
  CLUS_2             8             177
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MYO1G MUTATED        0      5      3      0      1      0      2
  MYO1G WILD-TYPE     72    104     87     44     48     46     66
D199V8, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             0              72
  CLUS_2             5             104
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             2              66
[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
  MYO1G MUTATED        2      6      4
  MYO1G WILD-TYPE    173    205     86
D199V9, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             2             173
  CLUS_2             6             205
  CLUS_3             4              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
  MYO1G MUTATED        1      7      2      2
  MYO1G WILD-TYPE     69    179    129     87
D199V10, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             1              69
  CLUS_2             7             179
  CLUS_3             2             129
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1G MUTATED        2      4      4
  MYO1G WILD-TYPE    139    178     85
D199V11, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             4              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
  MYO1G MUTATED        1      8      1
  MYO1G WILD-TYPE     93    225     84
D199V12, multiclass
        clus
vv       MYO1G MUTATED MYO1G WILD-TYPE
  CLUS_1             1              93
  CLUS_2             8             225
  CLUS_3             1              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"

Clustering(200) Variable = PUM2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PUM2 MUTATED        0      1      0      0
  PUM2 WILD-TYPE      5      6      5      3
D200V1, multiclass
[1] "Remove cluster labels:" "PUM2 MUTATED"          
clus
  PUM2 MUTATED PUM2 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUM2 MUTATED        1      0      0
  PUM2 WILD-TYPE      6      9      4
D200V2, multiclass
[1] "Remove cluster labels:" "PUM2 MUTATED"          
clus
  PUM2 MUTATED PUM2 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"PUM2 WILD-TYPE" "PUM2 WILD-TYPE" "PUM2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PUM2 MUTATED        1      9      0      2
  PUM2 WILD-TYPE     64    201     72    129
D200V3, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            9            201
  CLUS_3            0             72
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUM2 MUTATED        5      2      5
  PUM2 WILD-TYPE    126    136    156
D200V4, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            5            126
  CLUS_2            2            136
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUM2 MUTATED        0      3      3
  PUM2 WILD-TYPE     42     68     60
D200V5, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3             68
  CLUS_3            3             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
  PUM2 MUTATED        2      1      1      1      1
  PUM2 WILD-TYPE     37     31     42     29     31
D200V6, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            1             31
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUM2 MUTATED        2      8      2
  PUM2 WILD-TYPE    148    177    141
D200V7, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            8            177
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PUM2 MUTATED        1      4      2      1      1      2      1
  PUM2 WILD-TYPE     71    105     88     43     48     44     67
D200V8, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            4            105
  CLUS_3            2             88
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            1             67
[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
  PUM2 MUTATED        5      4      3
  PUM2 WILD-TYPE    170    207     87
D200V9, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            5            170
  CLUS_2            4            207
  CLUS_3            3             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
  PUM2 MUTATED        2      4      5      1
  PUM2 WILD-TYPE     68    182    126     88
D200V10, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4            182
  CLUS_3            5            126
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PUM2 MUTATED        3      4      4
  PUM2 WILD-TYPE    138    178     85
D200V11, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            4            178
  CLUS_3            4             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
  PUM2 MUTATED        2      7      2
  PUM2 WILD-TYPE     92    226     83
D200V12, multiclass
        clus
vv       PUM2 MUTATED PUM2 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            7            226
  CLUS_3            2             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"

Clustering(201) Variable = C11ORF63 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C11ORF63 MUTATED        1      0      0      0
  C11ORF63 WILD-TYPE      4      7      5      3
D201V1, multiclass
[1] "Remove cluster labels:" "C11ORF63 MUTATED"      
clus
  C11ORF63 MUTATED C11ORF63 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-3398 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-67-3773 
"C11ORF63 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF63 MUTATED        0      1      0
  C11ORF63 WILD-TYPE      7      8      4
D201V2, multiclass
[1] "Remove cluster labels:" "C11ORF63 MUTATED"      
clus
  C11ORF63 MUTATED C11ORF63 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-3398 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" "C11ORF63 WILD-TYPE" 
        TCGA-67-3773 
"C11ORF63 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C11ORF63 MUTATED        3      5      4      6
  C11ORF63 WILD-TYPE     62    205     68    125
D201V3, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                3                 62
  CLUS_2                5                205
  CLUS_3                4                 68
  CLUS_4                6                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF63 MUTATED        3      4     10
  C11ORF63 WILD-TYPE    128    134    151
D201V4, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                3                128
  CLUS_2                4                134
  CLUS_3               10                151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF63 MUTATED        0      1      2
  C11ORF63 WILD-TYPE     42     70     61
D201V5, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                1                 70
  CLUS_3                2                 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
  C11ORF63 MUTATED        0      0      2      1      0
  C11ORF63 WILD-TYPE     39     32     41     29     32
D201V6, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                0                 32
  CLUS_3                2                 41
  CLUS_4                1                 29
  CLUS_5                0                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF63 MUTATED        5     10      3
  C11ORF63 WILD-TYPE    145    175    140
D201V7, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                5                145
  CLUS_2               10                175
  CLUS_3                3                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C11ORF63 MUTATED        2      9      4      1      0      1      1
  C11ORF63 WILD-TYPE     70    100     86     43     49     45     67
D201V8, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                2                 70
  CLUS_2                9                100
  CLUS_3                4                 86
  CLUS_4                1                 43
  CLUS_5                0                 49
  CLUS_6                1                 45
  CLUS_7                1                 67
[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
  C11ORF63 MUTATED        1     12      5
  C11ORF63 WILD-TYPE    174    199     85
D201V9, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                1                174
  CLUS_2               12                199
  CLUS_3                5                 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
  C11ORF63 MUTATED        0     10      2      6
  C11ORF63 WILD-TYPE     70    176    129     83
D201V10, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2               10                176
  CLUS_3                2                129
  CLUS_4                6                 83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C11ORF63 MUTATED        4      8      4
  C11ORF63 WILD-TYPE    137    174     85
D201V11, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                4                137
  CLUS_2                8                174
  CLUS_3                4                 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
  C11ORF63 MUTATED        2     13      1
  C11ORF63 WILD-TYPE     92    220     84
D201V12, multiclass
        clus
vv       C11ORF63 MUTATED C11ORF63 WILD-TYPE
  CLUS_1                2                 92
  CLUS_2               13                220
  CLUS_3                1                 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"

Clustering(202) Variable = IPP MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IPP MUTATED        0      0      0      0
  IPP WILD-TYPE      5      7      5      3
D202V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IPP MUTATED        0      0      0
  IPP WILD-TYPE      7      9      4
D202V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IPP MUTATED        0      1      3      1
  IPP WILD-TYPE     65    209     69    130
D202V3, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           0            65
  CLUS_2           1           209
  CLUS_3           3            69
  CLUS_4           1           130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IPP MUTATED        1      3      0
  IPP WILD-TYPE    130    135    161
D202V4, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           1           130
  CLUS_2           3           135
  CLUS_3           0           161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IPP MUTATED        0      1      0
  IPP WILD-TYPE     42     70     63
D202V5, multiclass
[1] "Remove cluster labels:" "IPP MUTATED"           
clus
  IPP MUTATED IPP WILD-TYPE 
            1           175 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4402    TCGA-05-4405 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420    TCGA-05-4422 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423    TCGA-05-5429 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178    TCGA-44-2656 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396    TCGA-44-3919 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6146    TCGA-44-6147 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777    TCGA-44-6779 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-7659    TCGA-44-7662    TCGA-44-7670    TCGA-44-7671    TCGA-44-7672 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-4486    TCGA-49-4487    TCGA-49-4488    TCGA-49-4494    TCGA-49-4501 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-4505    TCGA-49-4506    TCGA-49-4507    TCGA-49-4510    TCGA-49-4512 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-4514    TCGA-49-6742    TCGA-49-6744    TCGA-49-6745    TCGA-49-6761 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-6767    TCGA-50-5044    TCGA-50-5049    TCGA-50-5051    TCGA-50-5068 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-50-5072    TCGA-50-5931    TCGA-50-5932    TCGA-50-5933    TCGA-50-5936 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-50-5939    TCGA-50-5941    TCGA-50-5942    TCGA-50-5944    TCGA-50-6593 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-50-6595    TCGA-50-6597    TCGA-50-6673    TCGA-50-7109    TCGA-53-7626 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-53-7813    TCGA-55-1592    TCGA-55-6543    TCGA-55-6712    TCGA-55-6970 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-55-6971    TCGA-55-6978    TCGA-55-6979    TCGA-55-6981    TCGA-55-6982 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-55-7573    TCGA-55-7574    TCGA-55-7728    TCGA-55-7815    TCGA-55-7911 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-64-1676    TCGA-64-1677    TCGA-64-1679    TCGA-64-1681    TCGA-64-5774 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-64-5778    TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-67-6217    TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-69-7765    TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-73-4676    TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-75-6205    TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-75-7027    TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7147    TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7153    TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7159    TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7166    TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7539    TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-80-5608    TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-91-6829    TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-91-7771    TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-95-7947    TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-97-7554    TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IPP MUTATED        0      0      1      0      0
  IPP WILD-TYPE     39     32     42     30     32
D202V6, multiclass
[1] "Remove cluster labels:" "IPP MUTATED"           
clus
  IPP MUTATED IPP WILD-TYPE 
            1           175 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4402    TCGA-05-4405 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420    TCGA-05-4422 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423    TCGA-05-5429 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178    TCGA-44-2656 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396    TCGA-44-3919 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6146    TCGA-44-6147 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777    TCGA-44-6779 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-44-7659    TCGA-44-7662    TCGA-44-7670    TCGA-44-7671    TCGA-44-7672 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-4486    TCGA-49-4487    TCGA-49-4488    TCGA-49-4494    TCGA-49-4501 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-4505    TCGA-49-4506    TCGA-49-4507    TCGA-49-4510    TCGA-49-4512 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-4514    TCGA-49-6742    TCGA-49-6744    TCGA-49-6745    TCGA-49-6761 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-49-6767    TCGA-50-5044    TCGA-50-5049    TCGA-50-5051    TCGA-50-5068 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-50-5072    TCGA-50-5931    TCGA-50-5932    TCGA-50-5933    TCGA-50-5936 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-50-5939    TCGA-50-5941    TCGA-50-5942    TCGA-50-5944    TCGA-50-6593 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-50-6595    TCGA-50-6597    TCGA-50-6673    TCGA-50-7109    TCGA-53-7626 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-53-7813    TCGA-55-1592    TCGA-55-6543    TCGA-55-6712    TCGA-55-6970 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-55-6971    TCGA-55-6978    TCGA-55-6979    TCGA-55-6981    TCGA-55-6982 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-55-7573    TCGA-55-7574    TCGA-55-7728    TCGA-55-7815    TCGA-55-7911 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-64-1676    TCGA-64-1677    TCGA-64-1679    TCGA-64-1681    TCGA-64-5774 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-64-5778    TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-67-6217    TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-69-7765    TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-73-4676    TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-75-6205    TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-75-7027    TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7147    TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7153    TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7159    TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7166    TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-78-7539    TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-80-5608    TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-91-6829    TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-91-7771    TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-95-7947    TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
   TCGA-97-7554    TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" "IPP WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IPP MUTATED        1      3      1
  IPP WILD-TYPE    149    182    142
D202V7, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           1           149
  CLUS_2           3           182
  CLUS_3           1           142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IPP MUTATED        1      1      2      0      0      1      0
  IPP WILD-TYPE     71    108     88     44     49     45     68
D202V8, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           1            71
  CLUS_2           1           108
  CLUS_3           2            88
  CLUS_4           0            44
  CLUS_5           0            49
  CLUS_6           1            45
  CLUS_7           0            68
[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
  IPP MUTATED        1      4      0
  IPP WILD-TYPE    174    207     90
D202V9, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           1           174
  CLUS_2           4           207
  CLUS_3           0            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
  IPP MUTATED        0      1      1      3
  IPP WILD-TYPE     70    185    130     86
D202V10, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           0            70
  CLUS_2           1           185
  CLUS_3           1           130
  CLUS_4           3            86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  IPP MUTATED        2      2      0
  IPP WILD-TYPE    139    180     89
D202V11, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           2           139
  CLUS_2           2           180
  CLUS_3           0            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
  IPP MUTATED        0      3      1
  IPP WILD-TYPE     94    230     84
D202V12, multiclass
        clus
vv       IPP MUTATED IPP WILD-TYPE
  CLUS_1           0            94
  CLUS_2           3           230
  CLUS_3           1            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"

Clustering(203) Variable = XRCC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XRCC6 MUTATED        0      0      0      0
  XRCC6 WILD-TYPE      5      7      5      3
D203V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        0      0      0
  XRCC6 WILD-TYPE      7      9      4
D203V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XRCC6 MUTATED        1      3      3      1
  XRCC6 WILD-TYPE     64    207     69    130
D203V3, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             3             207
  CLUS_3             3              69
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        1      2      4
  XRCC6 WILD-TYPE    130    136    157
D203V4, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             2             136
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        1      1      1
  XRCC6 WILD-TYPE     41     70     62
D203V5, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XRCC6 MUTATED        0      1      0      2      0
  XRCC6 WILD-TYPE     39     31     43     28     32
D203V6, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             2              28
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        1      4      3
  XRCC6 WILD-TYPE    149    181    140
D203V7, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XRCC6 MUTATED        0      3      1      1      0      3      0
  XRCC6 WILD-TYPE     72    106     89     43     49     43     68
D203V8, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             3              43
  CLUS_7             0              68
[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
  XRCC6 MUTATED        2      3      2
  XRCC6 WILD-TYPE    173    208     88
D203V9, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             3             208
  CLUS_3             2              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
  XRCC6 MUTATED        2      3      1      1
  XRCC6 WILD-TYPE     68    183    130     88
D203V10, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  XRCC6 MUTATED        2      1      3
  XRCC6 WILD-TYPE    139    181     86
D203V11, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             1             181
  CLUS_3             3              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
  XRCC6 MUTATED        1      5      0
  XRCC6 WILD-TYPE     93    228     85
D203V12, multiclass
        clus
vv       XRCC6 MUTATED XRCC6 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             5             228
  CLUS_3             0              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"

Clustering(204) Variable = RHEB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHEB MUTATED        0      1      0      1
  RHEB WILD-TYPE      5      6      5      2
D204V1, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-35-4122     TCGA-35-4123 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-67-3771 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHEB MUTATED        0      1      1
  RHEB WILD-TYPE      7      8      3
D204V2, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-35-4122     TCGA-35-4123 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-67-3771 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RHEB MUTATED        1      1      2      0
  RHEB WILD-TYPE     64    209     70    131
D204V3, multiclass
        clus
vv       RHEB MUTATED RHEB WILD-TYPE
  CLUS_1            1             64
  CLUS_2            1            209
  CLUS_3            2             70
  CLUS_4            0            131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHEB MUTATED        0      1      0
  RHEB WILD-TYPE    131    137    161
D204V4, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             1            429 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4632     TCGA-38-6178 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-38-7271     TCGA-38-A44F     TCGA-44-2656     TCGA-44-2665 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-3918     TCGA-44-4112     TCGA-44-5643     TCGA-44-5644 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-5645     TCGA-44-6144     TCGA-44-6145     TCGA-44-6146 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6148     TCGA-44-6774     TCGA-44-6775 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6778     TCGA-44-6779 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7660     TCGA-44-7661     TCGA-44-7662 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7667     TCGA-44-7669     TCGA-44-7670     TCGA-44-7671 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7672     TCGA-44-8117     TCGA-44-8119     TCGA-44-8120 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-A479     TCGA-44-A47A     TCGA-44-A47B     TCGA-44-A47F 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6975     TCGA-55-6978 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6979     TCGA-55-6980     TCGA-55-6981     TCGA-55-6982 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6983     TCGA-55-6984     TCGA-55-6985     TCGA-55-6986 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6987     TCGA-55-7227     TCGA-55-7281     TCGA-55-7283 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7284     TCGA-55-7570     TCGA-55-7573     TCGA-55-7574 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7576     TCGA-55-7724     TCGA-55-7725     TCGA-55-7726 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7727     TCGA-55-7728     TCGA-55-7815     TCGA-55-7816 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7903     TCGA-55-7907     TCGA-55-7910     TCGA-55-7911 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7913     TCGA-55-7914     TCGA-55-7994     TCGA-55-7995 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8085     TCGA-55-8087     TCGA-55-8089     TCGA-55-8090 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8091     TCGA-55-8092     TCGA-55-8094     TCGA-55-8096 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8097     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8207     TCGA-55-8208     TCGA-55-8299 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8301     TCGA-55-8302     TCGA-55-8505     TCGA-55-8506 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8507     TCGA-55-8508     TCGA-55-8510     TCGA-55-8511 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8512     TCGA-55-8513     TCGA-55-8514     TCGA-55-8614 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8615     TCGA-55-8616     TCGA-55-8619     TCGA-55-8620 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8621     TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A490     TCGA-55-A491     TCGA-55-A492     TCGA-55-A493 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A494     TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-8395     TCGA-62-8397     TCGA-62-8398     TCGA-62-8399 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-8402     TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A46S     TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A470     TCGA-62-A471     TCGA-62-A472     TCGA-64-1679 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-1681     TCGA-64-5774     TCGA-64-5775     TCGA-64-5778 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5779     TCGA-64-5781     TCGA-64-5815     TCGA-67-4679 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-67-6215     TCGA-67-6216     TCGA-67-6217     TCGA-69-7760 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7761     TCGA-69-7763     TCGA-69-7764     TCGA-69-7765 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7973     TCGA-69-7974     TCGA-69-7978     TCGA-69-7979 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7980     TCGA-69-8253     TCGA-69-8254     TCGA-69-8255 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-A59K     TCGA-71-6725     TCGA-71-8520     TCGA-73-4658 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-73-4676     TCGA-73-7498     TCGA-73-7499     TCGA-75-5122 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-5125     TCGA-75-5126     TCGA-75-5146     TCGA-75-5147 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6203     TCGA-75-6205     TCGA-75-6206     TCGA-75-6207 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7025 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7146     TCGA-78-7147     TCGA-78-7148 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7220 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7535     TCGA-78-7536     TCGA-78-7537     TCGA-78-7539 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7540     TCGA-78-7542     TCGA-78-7633     TCGA-78-8640 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-8648     TCGA-78-8655     TCGA-78-8660     TCGA-78-8662 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-80-5611     TCGA-83-5908 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7701     TCGA-86-7711 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-7713     TCGA-86-7714     TCGA-86-7953     TCGA-86-7954 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8672     TCGA-86-8673 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8674     TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829     TCGA-91-6830 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6831     TCGA-91-6835     TCGA-91-6836     TCGA-91-6840 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6847     TCGA-91-6848     TCGA-91-6849     TCGA-91-7771 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-8496     TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-A4BD     TCGA-93-7347     TCGA-93-7348     TCGA-93-8067 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7039     TCGA-95-7043     TCGA-95-7562     TCGA-95-7567 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7944     TCGA-95-7947     TCGA-95-7948     TCGA-95-8039 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN     TCGA-95-A4VP 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7546     TCGA-97-7547     TCGA-97-7552     TCGA-97-7553 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7554     TCGA-97-7937     TCGA-97-7938     TCGA-97-7941 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8171     TCGA-97-8172     TCGA-97-8174     TCGA-97-8175 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8176     TCGA-97-8177     TCGA-97-8179     TCGA-97-8547 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0     TCGA-97-A4M1 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5     TCGA-97-A4M6 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025     TCGA-99-8028 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192     TCGA-J2-8194 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG     TCGA-L4-A4E5 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444     TCGA-MN-A4N1 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV     TCGA-MP-A4SW 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A4YP 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O     TCGA-NJ-A55R 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-O1-A52J 
"RHEB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHEB MUTATED        1      0      1
  RHEB WILD-TYPE     41     71     62
D204V5, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RHEB MUTATED        0      0      0      1      1
  RHEB WILD-TYPE     39     32     43     29     31
D204V6, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHEB MUTATED        0      3      1
  RHEB WILD-TYPE    150    182    142
D204V7, multiclass
        clus
vv       RHEB MUTATED RHEB WILD-TYPE
  CLUS_1            0            150
  CLUS_2            3            182
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RHEB MUTATED        0      1      1      0      1      1      0
  RHEB WILD-TYPE     72    108     89     44     48     45     68
D204V8, multiclass
        clus
vv       RHEB MUTATED RHEB WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  RHEB MUTATED        1      3      0
  RHEB WILD-TYPE    174    208     90
D204V9, multiclass
        clus
vv       RHEB MUTATED RHEB WILD-TYPE
  CLUS_1            1            174
  CLUS_2            3            208
  CLUS_3            0             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
  RHEB MUTATED        0      3      1      0
  RHEB WILD-TYPE     70    183    130     89
D204V10, multiclass
        clus
vv       RHEB MUTATED RHEB WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            183
  CLUS_3            1            130
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHEB MUTATED        0      0      1
  RHEB WILD-TYPE    141    182     88
D204V11, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             1            411 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4632     TCGA-38-6178 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643     TCGA-44-5644 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-5645     TCGA-44-6144     TCGA-44-6145     TCGA-44-6146 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6148     TCGA-44-6774     TCGA-44-6775 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6778     TCGA-44-6779 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7660     TCGA-44-7661     TCGA-44-7662 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7667     TCGA-44-7669     TCGA-44-7670     TCGA-44-7671 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7672     TCGA-44-8117     TCGA-44-8119     TCGA-44-8120 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F     TCGA-44-A47G 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487     TCGA-49-4488 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4490     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6743     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5045     TCGA-50-5049 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5051     TCGA-50-5055     TCGA-50-5066     TCGA-50-5068 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5930     TCGA-50-5931     TCGA-50-5932 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5935     TCGA-50-5936     TCGA-50-5939 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5941     TCGA-50-5942     TCGA-50-5944     TCGA-50-5946 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6590     TCGA-50-6591     TCGA-50-6592     TCGA-50-6593 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6594     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-7109     TCGA-50-8457     TCGA-50-8459     TCGA-50-8460 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-53-7624     TCGA-53-7626     TCGA-53-7813     TCGA-53-A4EZ 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-5899     TCGA-55-6543     TCGA-55-6642     TCGA-55-6712 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6968     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6972     TCGA-55-6978     TCGA-55-6979     TCGA-55-6980 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-6983     TCGA-55-6984 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6985     TCGA-55-6986     TCGA-55-6987     TCGA-55-7227 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7281     TCGA-55-7283     TCGA-55-7284     TCGA-55-7570 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7576     TCGA-55-7724 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7726     TCGA-55-7727     TCGA-55-7728     TCGA-55-7815 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7816     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8085     TCGA-55-8087     TCGA-55-8089     TCGA-55-8090 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8091     TCGA-55-8092     TCGA-55-8094     TCGA-55-8096 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8203     TCGA-55-8204     TCGA-55-8205     TCGA-55-8206 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8208     TCGA-55-8299     TCGA-55-8301     TCGA-55-8302 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8505     TCGA-55-8506     TCGA-55-8507     TCGA-55-8508 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8510     TCGA-55-8511     TCGA-55-8512     TCGA-55-8513 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8514     TCGA-55-8614     TCGA-55-8615     TCGA-55-8616 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8619     TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A492     TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395     TCGA-62-8397 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-8398     TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A472     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5775     TCGA-64-5778     TCGA-64-5779     TCGA-64-5781 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5815     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7765     TCGA-69-7973     TCGA-69-7974 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7978     TCGA-69-7979     TCGA-69-7980     TCGA-69-8253 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-71-8520     TCGA-73-4658     TCGA-73-4676     TCGA-73-7498 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     TCGA-75-5126 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-5146     TCGA-75-5147     TCGA-75-6203     TCGA-75-6205 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6206     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7025     TCGA-75-7027     TCGA-75-7030 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7163 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5607 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-80-5608     TCGA-80-5611     TCGA-83-5908     TCGA-86-6562 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7701     TCGA-86-7711     TCGA-86-7713 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-7714     TCGA-86-7953     TCGA-86-7954     TCGA-86-7955 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8054     TCGA-86-8055     TCGA-86-8056     TCGA-86-8073 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8074     TCGA-86-8075     TCGA-86-8076     TCGA-86-8278 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8279     TCGA-86-8280     TCGA-86-8281     TCGA-86-8358 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8359     TCGA-86-8585     TCGA-86-8668     TCGA-86-8669 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8671     TCGA-86-8672     TCGA-86-8673     TCGA-86-8674 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6828     TCGA-91-6829     TCGA-91-6830     TCGA-91-6831 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6836     TCGA-91-6840     TCGA-91-6847 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6848     TCGA-91-6849     TCGA-91-7771     TCGA-91-8496 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-7347     TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7562     TCGA-95-7567     TCGA-95-7944     TCGA-95-7947 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7948     TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-97-8171     TCGA-97-8172 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8174     TCGA-97-8175     TCGA-97-8176     TCGA-97-8177 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8179     TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-99-8025     TCGA-99-8028     TCGA-99-8032     TCGA-99-8033 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RHEB MUTATED        0      1      0
  RHEB WILD-TYPE     94    232     85
D204V12, multiclass
[1] "Remove cluster labels:" "RHEB MUTATED"          
clus
  RHEB MUTATED RHEB WILD-TYPE 
             1            411 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4632     TCGA-38-6178 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643     TCGA-44-5644 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-5645     TCGA-44-6144     TCGA-44-6145     TCGA-44-6146 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6148     TCGA-44-6774     TCGA-44-6775 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6778     TCGA-44-6779 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7660     TCGA-44-7661     TCGA-44-7662 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7667     TCGA-44-7669     TCGA-44-7670     TCGA-44-7671 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-7672     TCGA-44-8117     TCGA-44-8119     TCGA-44-8120 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F     TCGA-44-A47G 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487     TCGA-49-4488 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-4490     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6743     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5045     TCGA-50-5049 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5051     TCGA-50-5055     TCGA-50-5066     TCGA-50-5068 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5930     TCGA-50-5931     TCGA-50-5932 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5935     TCGA-50-5936     TCGA-50-5939 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-5941     TCGA-50-5942     TCGA-50-5944     TCGA-50-5946 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6590     TCGA-50-6591     TCGA-50-6592     TCGA-50-6593 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-6594     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-50-7109     TCGA-50-8457     TCGA-50-8459     TCGA-50-8460 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-53-7624     TCGA-53-7626     TCGA-53-7813     TCGA-53-A4EZ 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-5899     TCGA-55-6543     TCGA-55-6642     TCGA-55-6712 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6968     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6972     TCGA-55-6978     TCGA-55-6979     TCGA-55-6980 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-6983     TCGA-55-6984 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-6985     TCGA-55-6986     TCGA-55-6987     TCGA-55-7227 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7281     TCGA-55-7283     TCGA-55-7284     TCGA-55-7570 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7576     TCGA-55-7724 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7726     TCGA-55-7727     TCGA-55-7728     TCGA-55-7815 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7816     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8085     TCGA-55-8087     TCGA-55-8089     TCGA-55-8090 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8091     TCGA-55-8092     TCGA-55-8094     TCGA-55-8096 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8203     TCGA-55-8204     TCGA-55-8205     TCGA-55-8206 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8208     TCGA-55-8299     TCGA-55-8301     TCGA-55-8302 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8505     TCGA-55-8506     TCGA-55-8507     TCGA-55-8508 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8510     TCGA-55-8511     TCGA-55-8512     TCGA-55-8513 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8514     TCGA-55-8614     TCGA-55-8615     TCGA-55-8616 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-8619     TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A492     TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395     TCGA-62-8397 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-8398     TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-62-A472     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5775     TCGA-64-5778     TCGA-64-5779     TCGA-64-5781 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-64-5815     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7765     TCGA-69-7973     TCGA-69-7974 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-7978     TCGA-69-7979     TCGA-69-7980     TCGA-69-8253 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-71-8520     TCGA-73-4658     TCGA-73-4676     TCGA-73-7498 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     TCGA-75-5126 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-5146     TCGA-75-5147     TCGA-75-6203     TCGA-75-6205 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6206     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7025     TCGA-75-7027     TCGA-75-7030 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7163 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5607 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-80-5608     TCGA-80-5611     TCGA-83-5908     TCGA-86-6562 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7701     TCGA-86-7711     TCGA-86-7713 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-7714     TCGA-86-7953     TCGA-86-7954     TCGA-86-7955 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8054     TCGA-86-8055     TCGA-86-8056     TCGA-86-8073 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8074     TCGA-86-8075     TCGA-86-8076     TCGA-86-8278 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8279     TCGA-86-8280     TCGA-86-8281     TCGA-86-8358 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8359     TCGA-86-8585     TCGA-86-8668     TCGA-86-8669 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-8671     TCGA-86-8672     TCGA-86-8673     TCGA-86-8674 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6828     TCGA-91-6829     TCGA-91-6830     TCGA-91-6831 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6836     TCGA-91-6840     TCGA-91-6847 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-6848     TCGA-91-6849     TCGA-91-7771     TCGA-91-8496 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-7347     TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7562     TCGA-95-7567     TCGA-95-7944     TCGA-95-7947 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-7948     TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-97-8171     TCGA-97-8172 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8174     TCGA-97-8175     TCGA-97-8176     TCGA-97-8177 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-8179     TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-99-8025     TCGA-99-8028     TCGA-99-8032     TCGA-99-8033 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"RHEB WILD-TYPE" "RHEB WILD-TYPE" "RHEB WILD-TYPE" 

Clustering(205) Variable = TSLP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TSLP MUTATED        0      0      0      0
  TSLP WILD-TYPE      5      7      5      3
D205V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSLP MUTATED        0      0      0
  TSLP WILD-TYPE      7      9      4
D205V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TSLP MUTATED        0      2      2      3
  TSLP WILD-TYPE     65    208     70    128
D205V3, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            0             65
  CLUS_2            2            208
  CLUS_3            2             70
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSLP MUTATED        1      3      2
  TSLP WILD-TYPE    130    135    159
D205V4, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSLP MUTATED        1      2      0
  TSLP WILD-TYPE     41     69     63
D205V5, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            0             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 CLUS_4 CLUS_5
  TSLP MUTATED        1      1      1      0      0
  TSLP WILD-TYPE     38     31     42     30     32
D205V6, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1             38
  CLUS_2            1             31
  CLUS_3            1             42
  CLUS_4            0             30
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSLP MUTATED        1      5      1
  TSLP WILD-TYPE    149    180    142
D205V7, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1            149
  CLUS_2            5            180
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TSLP MUTATED        0      1      2      1      0      2      1
  TSLP WILD-TYPE     72    108     88     43     49     44     67
D205V8, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            2             88
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            2             44
  CLUS_7            1             67
[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
  TSLP MUTATED        1      6      0
  TSLP WILD-TYPE    174    205     90
D205V9, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1            174
  CLUS_2            6            205
  CLUS_3            0             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
  TSLP MUTATED        1      3      0      3
  TSLP WILD-TYPE     69    183    131     86
D205V10, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            0            131
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TSLP MUTATED        1      3      2
  TSLP WILD-TYPE    140    179     87
D205V11, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            2             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
  TSLP MUTATED        0      5      1
  TSLP WILD-TYPE     94    228     84
D205V12, multiclass
        clus
vv       TSLP MUTATED TSLP WILD-TYPE
  CLUS_1            0             94
  CLUS_2            5            228
  CLUS_3            1             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"

Clustering(206) Variable = LIPG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIPG MUTATED        0      0      0      0
  LIPG WILD-TYPE      5      7      5      3
D206V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPG MUTATED        0      0      0
  LIPG WILD-TYPE      7      9      4
D206V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIPG MUTATED        2      2      2      3
  LIPG WILD-TYPE     63    208     70    128
D206V3, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2            208
  CLUS_3            2             70
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPG MUTATED        1      3      4
  LIPG WILD-TYPE    130    135    157
D206V4, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPG MUTATED        1      1      1
  LIPG WILD-TYPE     41     70     62
D206V5, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIPG MUTATED        0      0      1      2      0
  LIPG WILD-TYPE     39     32     42     28     32
D206V6, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPG MUTATED        3      4      2
  LIPG WILD-TYPE    147    181    141
D206V7, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            3            147
  CLUS_2            4            181
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LIPG MUTATED        1      2      3      0      2      1      0
  LIPG WILD-TYPE     71    107     87     44     47     45     68
D206V8, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            1             71
  CLUS_2            2            107
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            0             68
[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
  LIPG MUTATED        1      7      1
  LIPG WILD-TYPE    174    204     89
D206V9, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            1            174
  CLUS_2            7            204
  CLUS_3            1             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
  LIPG MUTATED        0      6      2      1
  LIPG WILD-TYPE     70    180    129     88
D206V10, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            0             70
  CLUS_2            6            180
  CLUS_3            2            129
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIPG MUTATED        1      6      1
  LIPG WILD-TYPE    140    176     88
D206V11, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            1            140
  CLUS_2            6            176
  CLUS_3            1             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
  LIPG MUTATED        0      7      1
  LIPG WILD-TYPE     94    226     84
D206V12, multiclass
        clus
vv       LIPG MUTATED LIPG WILD-TYPE
  CLUS_1            0             94
  CLUS_2            7            226
  CLUS_3            1             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"

Clustering(207) Variable = SOS1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOS1 MUTATED        1      1      0      1
  SOS1 WILD-TYPE      4      6      5      2
D207V1, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1              4
  CLUS_2            1              6
  CLUS_3            0              5
  CLUS_4            1              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      2      1
  SOS1 WILD-TYPE      7      7      3
D207V2, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            0              7
  CLUS_2            2              7
  CLUS_3            1              3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      9      1      2
  SOS1 WILD-TYPE     63    201     71    129
D207V3, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            9            201
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6
  SOS1 WILD-TYPE    127    135    155
D207V4, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            4            127
  CLUS_2            3            135
  CLUS_3            6            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        0      5      3
  SOS1 WILD-TYPE     42     66     60
D207V5, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            5             66
  CLUS_3            3             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
  SOS1 MUTATED        1      3      3      1      0
  SOS1 WILD-TYPE     38     29     40     29     32
D207V6, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            3             29
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOS1 MUTATED        1      8      5
  SOS1 WILD-TYPE    149    177    138
D207V7, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            8            177
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SOS1 MUTATED        0      5      2      3      1      2      1
  SOS1 WILD-TYPE     72    104     88     41     48     44     67
D207V8, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            5            104
  CLUS_3            2             88
  CLUS_4            3             41
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            1             67
[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        5      8      1
  SOS1 WILD-TYPE    170    203     89
D207V9, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            5            170
  CLUS_2            8            203
  CLUS_3            1             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
  SOS1 MUTATED        1      5      4      4
  SOS1 WILD-TYPE     69    181    127     85
D207V10, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            5            181
  CLUS_3            4            127
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      1
  SOS1 WILD-TYPE    137    176     88
D207V11, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            6            176
  CLUS_3            1             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
  SOS1 MUTATED        3      7      1
  SOS1 WILD-TYPE     91    226     84
D207V12, multiclass
        clus
vv       SOS1 MUTATED SOS1 WILD-TYPE
  CLUS_1            3             91
  CLUS_2            7            226
  CLUS_3            1             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"

Clustering(208) Variable = KCTD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCTD1 MUTATED        0      0      0      0
  KCTD1 WILD-TYPE      5      7      5      3
D208V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD1 MUTATED        0      0      0
  KCTD1 WILD-TYPE      7      9      4
D208V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KCTD1 MUTATED        1      4      0      1
  KCTD1 WILD-TYPE     64    206     72    130
D208V3, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             4             206
  CLUS_3             0              72
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD1 MUTATED        2      2      1
  KCTD1 WILD-TYPE    129    136    160
D208V4, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD1 MUTATED        0      0      2
  KCTD1 WILD-TYPE     42     71     61
D208V5, multiclass
[1] "Remove cluster labels:" "KCTD1 MUTATED"         
clus
  KCTD1 MUTATED KCTD1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4507 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KCTD1 MUTATED        0      0      1      1      0
  KCTD1 WILD-TYPE     39     32     42     29     32
D208V6, multiclass
[1] "Remove cluster labels:" "KCTD1 MUTATED"         
clus
  KCTD1 MUTATED KCTD1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4507 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"KCTD1 WILD-TYPE" "KCTD1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD1 MUTATED        2      3      1
  KCTD1 WILD-TYPE    148    182    142
D208V7, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             3             182
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KCTD1 MUTATED        0      1      1      0      1      1      2
  KCTD1 WILD-TYPE     72    108     89     44     48     45     66
D208V8, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             2              66
[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
  KCTD1 MUTATED        3      3      0
  KCTD1 WILD-TYPE    172    208     90
D208V9, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             3             208
  CLUS_3             0              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
  KCTD1 MUTATED        1      2      2      1
  KCTD1 WILD-TYPE     69    184    129     88
D208V10, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             2             129
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KCTD1 MUTATED        1      3      1
  KCTD1 WILD-TYPE    140    179     88
D208V11, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             3             179
  CLUS_3             1              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
  KCTD1 MUTATED        1      3      1
  KCTD1 WILD-TYPE     93    230     84
D208V12, multiclass
        clus
vv       KCTD1 MUTATED KCTD1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(209) Variable = IRF2BP2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRF2BP2 MUTATED        0      0      0      0
  IRF2BP2 WILD-TYPE      5      7      5      3
D209V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IRF2BP2 MUTATED        0      0      0
  IRF2BP2 WILD-TYPE      7      9      4
D209V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRF2BP2 MUTATED        1      2      2      2
  IRF2BP2 WILD-TYPE     64    208     70    129
D209V3, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               2               208
  CLUS_3               2                70
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IRF2BP2 MUTATED        1      5      1
  IRF2BP2 WILD-TYPE    130    133    160
D209V4, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               5               133
  CLUS_3               1               160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IRF2BP2 MUTATED        0      1      1
  IRF2BP2 WILD-TYPE     42     70     62
D209V5, multiclass
[1] "Remove cluster labels:" "IRF2BP2 MUTATED"       
clus
  IRF2BP2 MUTATED IRF2BP2 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7728 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-5774        TCGA-64-5778        TCGA-64-5781 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-6215        TCGA-67-6216        TCGA-67-6217 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-69-7760        TCGA-69-7761        TCGA-69-7763        TCGA-69-7764 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-69-7765        TCGA-71-6725        TCGA-73-4658        TCGA-73-4659 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-73-4675        TCGA-73-4676        TCGA-73-7498        TCGA-73-7499 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-75-5122        TCGA-75-6203        TCGA-75-6205        TCGA-75-6207 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-75-6211        TCGA-75-6212        TCGA-75-6214        TCGA-75-7027 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-75-7030        TCGA-75-7031        TCGA-78-7143        TCGA-78-7145 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7147        TCGA-78-7148        TCGA-78-7149        TCGA-78-7150 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7152        TCGA-78-7153        TCGA-78-7154        TCGA-78-7155 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7156        TCGA-78-7158        TCGA-78-7159        TCGA-78-7160 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7161        TCGA-78-7162        TCGA-78-7163        TCGA-78-7166 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7167        TCGA-78-7535        TCGA-78-7536        TCGA-78-7537 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7539        TCGA-78-7540        TCGA-78-7542        TCGA-78-7633 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-80-5607        TCGA-80-5608        TCGA-86-6562        TCGA-86-6851 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-86-7713        TCGA-91-6828        TCGA-91-6829        TCGA-91-6835 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-91-6840        TCGA-91-6847        TCGA-91-6849        TCGA-91-7771 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-93-7348        TCGA-95-7039        TCGA-95-7043        TCGA-95-7567 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRF2BP2 MUTATED        1      0      0      0      1
  IRF2BP2 WILD-TYPE     38     32     43     30     31
D209V6, multiclass
[1] "Remove cluster labels:" "IRF2BP2 MUTATED"       
clus
  IRF2BP2 MUTATED IRF2BP2 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7728 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-5774        TCGA-64-5778        TCGA-64-5781 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-6215        TCGA-67-6216        TCGA-67-6217 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-69-7760        TCGA-69-7761        TCGA-69-7763        TCGA-69-7764 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-69-7765        TCGA-71-6725        TCGA-73-4658        TCGA-73-4659 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-73-4675        TCGA-73-4676        TCGA-73-7498        TCGA-73-7499 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-75-5122        TCGA-75-6203        TCGA-75-6205        TCGA-75-6207 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-75-6211        TCGA-75-6212        TCGA-75-6214        TCGA-75-7027 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-75-7030        TCGA-75-7031        TCGA-78-7143        TCGA-78-7145 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7147        TCGA-78-7148        TCGA-78-7149        TCGA-78-7150 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7152        TCGA-78-7153        TCGA-78-7154        TCGA-78-7155 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7156        TCGA-78-7158        TCGA-78-7159        TCGA-78-7160 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7161        TCGA-78-7162        TCGA-78-7163        TCGA-78-7166 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7167        TCGA-78-7535        TCGA-78-7536        TCGA-78-7537 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-78-7539        TCGA-78-7540        TCGA-78-7542        TCGA-78-7633 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-80-5607        TCGA-80-5608        TCGA-86-6562        TCGA-86-6851 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-86-7713        TCGA-91-6828        TCGA-91-6829        TCGA-91-6835 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-91-6840        TCGA-91-6847        TCGA-91-6849        TCGA-91-7771 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-93-7348        TCGA-95-7039        TCGA-95-7043        TCGA-95-7567 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"IRF2BP2 WILD-TYPE" "IRF2BP2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IRF2BP2 MUTATED        2      2      3
  IRF2BP2 WILD-TYPE    148    183    140
D209V7, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               2               183
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IRF2BP2 MUTATED        1      1      2      0      1      1      1
  IRF2BP2 WILD-TYPE     71    108     88     44     48     45     67
D209V8, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               1               108
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               1                67
[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
  IRF2BP2 MUTATED        1      4      2
  IRF2BP2 WILD-TYPE    174    207     88
D209V9, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               4               207
  CLUS_3               2                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
  IRF2BP2 MUTATED        0      3      2      2
  IRF2BP2 WILD-TYPE     70    183    129     87
D209V10, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               183
  CLUS_3               2               129
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IRF2BP2 MUTATED        3      3      1
  IRF2BP2 WILD-TYPE    138    179     88
D209V11, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               3               179
  CLUS_3               1                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
  IRF2BP2 MUTATED        0      5      2
  IRF2BP2 WILD-TYPE     94    228     83
D209V12, multiclass
        clus
vv       IRF2BP2 MUTATED IRF2BP2 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               5               228
  CLUS_3               2                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"

Clustering(210) Variable = SUN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SUN1 MUTATED        0      0      0      0
  SUN1 WILD-TYPE      5      7      5      3
D210V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN1 MUTATED        0      0      0
  SUN1 WILD-TYPE      7      9      4
D210V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SUN1 MUTATED        1      5      5      4
  SUN1 WILD-TYPE     64    205     67    127
D210V3, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            5            205
  CLUS_3            5             67
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN1 MUTATED        3      4      4
  SUN1 WILD-TYPE    128    134    157
D210V4, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            4            134
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN1 MUTATED        1      1      2
  SUN1 WILD-TYPE     41     70     61
D210V5, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            2             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
  SUN1 MUTATED        0      0      2      0      2
  SUN1 WILD-TYPE     39     32     41     30     30
D210V6, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            0             30
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN1 MUTATED        2     10      3
  SUN1 WILD-TYPE    148    175    140
D210V7, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            2            148
  CLUS_2           10            175
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SUN1 MUTATED        1      5      4      0      0      4      1
  SUN1 WILD-TYPE     71    104     86     44     49     42     67
D210V8, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            5            104
  CLUS_3            4             86
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            4             42
  CLUS_7            1             67
[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
  SUN1 MUTATED        1     11      2
  SUN1 WILD-TYPE    174    200     88
D210V9, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            1            174
  CLUS_2           11            200
  CLUS_3            2             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
  SUN1 MUTATED        1     10      0      3
  SUN1 WILD-TYPE     69    176    131     86
D210V10, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2           10            176
  CLUS_3            0            131
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SUN1 MUTATED        2      6      3
  SUN1 WILD-TYPE    139    176     86
D210V11, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            6            176
  CLUS_3            3             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
  SUN1 MUTATED        0      9      2
  SUN1 WILD-TYPE     94    224     83
D210V12, multiclass
        clus
vv       SUN1 MUTATED SUN1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            9            224
  CLUS_3            2             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"

Clustering(211) Variable = SEMA6C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEMA6C MUTATED        0      0      0      0
  SEMA6C WILD-TYPE      5      7      5      3
D211V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA6C MUTATED        0      0      0
  SEMA6C WILD-TYPE      7      9      4
D211V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SEMA6C MUTATED        1      1      1      4
  SEMA6C WILD-TYPE     64    209     71    127
D211V3, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1               64
  CLUS_2              1              209
  CLUS_3              1               71
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA6C MUTATED        1      2      3
  SEMA6C WILD-TYPE    130    136    158
D211V4, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1              130
  CLUS_2              2              136
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA6C MUTATED        1      2      1
  SEMA6C WILD-TYPE     41     69     62
D211V5, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2               69
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SEMA6C MUTATED        1      1      1      1      0
  SEMA6C WILD-TYPE     38     31     42     29     32
D211V6, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              1               29
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA6C MUTATED        1      6      0
  SEMA6C WILD-TYPE    149    179    143
D211V7, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1              149
  CLUS_2              6              179
  CLUS_3              0              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SEMA6C MUTATED        0      3      2      1      0      1      0
  SEMA6C WILD-TYPE     72    106     88     43     49     45     68
D211V8, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              2               88
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              0               68
[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
  SEMA6C MUTATED        1      4      2
  SEMA6C WILD-TYPE    174    207     88
D211V9, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1              174
  CLUS_2              4              207
  CLUS_3              2               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
  SEMA6C MUTATED        0      3      1      3
  SEMA6C WILD-TYPE     70    183    130     86
D211V10, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              183
  CLUS_3              1              130
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SEMA6C MUTATED        1      3      1
  SEMA6C WILD-TYPE    140    179     88
D211V11, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              1              140
  CLUS_2              3              179
  CLUS_3              1               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
  SEMA6C MUTATED        0      5      0
  SEMA6C WILD-TYPE     94    228     85
D211V12, multiclass
        clus
vv       SEMA6C MUTATED SEMA6C WILD-TYPE
  CLUS_1              0               94
  CLUS_2              5              228
  CLUS_3              0               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"

Clustering(212) Variable = KLF5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLF5 MUTATED        0      0      0      0
  KLF5 WILD-TYPE      5      7      5      3
D212V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        0      0      0
  KLF5 WILD-TYPE      7      9      4
D212V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLF5 MUTATED        0      2      1      1
  KLF5 WILD-TYPE     65    208     71    130
D212V3, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            2            208
  CLUS_3            1             71
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        0      1      3
  KLF5 WILD-TYPE    131    137    158
D212V4, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            0            131
  CLUS_2            1            137
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        2      0      1
  KLF5 WILD-TYPE     40     71     62
D212V5, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0             71
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLF5 MUTATED        0      0      0      1      2
  KLF5 WILD-TYPE     39     32     43     29     30
D212V6, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            0             43
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        1      2      1
  KLF5 WILD-TYPE    149    183    142
D212V7, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            2            183
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KLF5 MUTATED        2      1      1      0      0      0      0
  KLF5 WILD-TYPE     70    108     89     44     49     46     68
D212V8, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            2             70
  CLUS_2            1            108
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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
  KLF5 MUTATED        2      2      0
  KLF5 WILD-TYPE    173    209     90
D212V9, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            2            209
  CLUS_3            0             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
  KLF5 MUTATED        1      2      0      1
  KLF5 WILD-TYPE     69    184    131     88
D212V10, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            184
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLF5 MUTATED        3      0      1
  KLF5 WILD-TYPE    138    182     88
D212V11, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            0            182
  CLUS_3            1             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
  KLF5 MUTATED        1      1      2
  KLF5 WILD-TYPE     93    232     83
D212V12, multiclass
        clus
vv       KLF5 MUTATED KLF5 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            1            232
  CLUS_3            2             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"

Clustering(213) Variable = RFTN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RFTN2 MUTATED        0      0      0      1
  RFTN2 WILD-TYPE      5      7      5      2
D213V1, multiclass
[1] "Remove cluster labels:" "RFTN2 MUTATED"         
clus
  RFTN2 MUTATED RFTN2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFTN2 MUTATED        0      0      1
  RFTN2 WILD-TYPE      7      9      3
D213V2, multiclass
[1] "Remove cluster labels:" "RFTN2 MUTATED"         
clus
  RFTN2 MUTATED RFTN2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" "RFTN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RFTN2 MUTATED        2      3      3      3
  RFTN2 WILD-TYPE     63    207     69    128
D213V3, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             3             207
  CLUS_3             3              69
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFTN2 MUTATED        2      5      3
  RFTN2 WILD-TYPE    129    133    158
D213V4, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             5             133
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFTN2 MUTATED        2      1      0
  RFTN2 WILD-TYPE     40     70     63
D213V5, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             0              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 CLUS_4 CLUS_5
  RFTN2 MUTATED        1      0      0      0      2
  RFTN2 WILD-TYPE     38     32     43     30     30
D213V6, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFTN2 MUTATED        2      4      5
  RFTN2 WILD-TYPE    148    181    138
D213V7, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             4             181
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RFTN2 MUTATED        1      3      4      0      0      3      0
  RFTN2 WILD-TYPE     71    106     86     44     49     43     68
D213V8, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             3             106
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             3              43
  CLUS_7             0              68
[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
  RFTN2 MUTATED        2      8      1
  RFTN2 WILD-TYPE    173    203     89
D213V9, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             8             203
  CLUS_3             1              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
  RFTN2 MUTATED        1      3      1      6
  RFTN2 WILD-TYPE     69    183    130     83
D213V10, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RFTN2 MUTATED        2      5      3
  RFTN2 WILD-TYPE    139    177     86
D213V11, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             5             177
  CLUS_3             3              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
  RFTN2 MUTATED        0      9      1
  RFTN2 WILD-TYPE     94    224     84
D213V12, multiclass
        clus
vv       RFTN2 MUTATED RFTN2 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             9             224
  CLUS_3             1              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"

Clustering(214) Variable = ZNF81 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF81 MUTATED        0      0      0      0
  ZNF81 WILD-TYPE      5      7      5      3
D214V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF81 MUTATED        0      0      0
  ZNF81 WILD-TYPE      7      9      4
D214V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF81 MUTATED        1      2      3      2
  ZNF81 WILD-TYPE     64    208     69    129
D214V3, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             3              69
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF81 MUTATED        1      3      3
  ZNF81 WILD-TYPE    130    135    158
D214V4, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF81 MUTATED        1      1      1
  ZNF81 WILD-TYPE     41     70     62
D214V5, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF81 MUTATED        1      1      0      1      0
  ZNF81 WILD-TYPE     38     31     43     29     32
D214V6, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF81 MUTATED        2      5      1
  ZNF81 WILD-TYPE    148    180    142
D214V7, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             5             180
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF81 MUTATED        0      1      3      1      1      0      2
  ZNF81 WILD-TYPE     72    108     87     43     48     46     66
D214V8, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             2              66
[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
  ZNF81 MUTATED        1      6      1
  ZNF81 WILD-TYPE    174    205     89
D214V9, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             1              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
  ZNF81 MUTATED        1      4      0      3
  ZNF81 WILD-TYPE     69    182    131     86
D214V10, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZNF81 MUTATED        3      3      1
  ZNF81 WILD-TYPE    138    179     88
D214V11, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             1              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
  ZNF81 MUTATED        1      5      1
  ZNF81 WILD-TYPE     93    228     84
D214V12, multiclass
        clus
vv       ZNF81 MUTATED ZNF81 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             5             228
  CLUS_3             1              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"

Clustering(215) Variable = FER MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FER MUTATED        0      0      1      0
  FER WILD-TYPE      5      7      4      3
D215V1, multiclass
[1] "Remove cluster labels:" "FER MUTATED"           
clus
  FER MUTATED FER WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        1      0      0
  FER WILD-TYPE      6      9      4
D215V2, multiclass
[1] "Remove cluster labels:" "FER MUTATED"           
clus
  FER MUTATED FER WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" "FER WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FER MUTATED        1      5      1      6
  FER WILD-TYPE     64    205     71    125
D215V3, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           1            64
  CLUS_2           5           205
  CLUS_3           1            71
  CLUS_4           6           125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        0      2     11
  FER WILD-TYPE    131    136    150
D215V4, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0           131
  CLUS_2           2           136
  CLUS_3          11           150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        0      1      4
  FER WILD-TYPE     42     70     59
D215V5, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1            70
  CLUS_3           4            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 CLUS_4 CLUS_5
  FER MUTATED        0      0      5      0      0
  FER WILD-TYPE     39     32     38     30     32
D215V6, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            39
  CLUS_2           0            32
  CLUS_3           5            38
  CLUS_4           0            30
  CLUS_5           0            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        2      8      3
  FER WILD-TYPE    148    177    140
D215V7, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           2           148
  CLUS_2           8           177
  CLUS_3           3           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FER MUTATED        0      5      5      0      0      0      3
  FER WILD-TYPE     72    104     85     44     49     46     65
D215V8, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0            72
  CLUS_2           5           104
  CLUS_3           5            85
  CLUS_4           0            44
  CLUS_5           0            49
  CLUS_6           0            46
  CLUS_7           3            65
[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
  FER MUTATED        3      6      4
  FER WILD-TYPE    172    205     86
D215V9, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           3           172
  CLUS_2           6           205
  CLUS_3           4            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
  FER MUTATED        1      4      3      5
  FER WILD-TYPE     69    182    128     84
D215V10, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           1            69
  CLUS_2           4           182
  CLUS_3           3           128
  CLUS_4           5            84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FER MUTATED        0      6      5
  FER WILD-TYPE    141    176     84
D215V11, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           0           141
  CLUS_2           6           176
  CLUS_3           5            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
  FER MUTATED        2      8      1
  FER WILD-TYPE     92    225     84
D215V12, multiclass
        clus
vv       FER MUTATED FER WILD-TYPE
  CLUS_1           2            92
  CLUS_2           8           225
  CLUS_3           1            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"

Clustering(216) Variable = NPHS1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NPHS1 MUTATED        0      0      0      0
  NPHS1 WILD-TYPE      5      7      5      3
D216V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NPHS1 MUTATED        0      0      0
  NPHS1 WILD-TYPE      7      9      4
D216V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NPHS1 MUTATED        5      5      6      8
  NPHS1 WILD-TYPE     60    205     66    123
D216V3, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             5              60
  CLUS_2             5             205
  CLUS_3             6              66
  CLUS_4             8             123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NPHS1 MUTATED        3      8     11
  NPHS1 WILD-TYPE    128    130    150
D216V4, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             8             130
  CLUS_3            11             150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NPHS1 MUTATED        2      1      7
  NPHS1 WILD-TYPE     40     70     56
D216V5, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             7              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 CLUS_4 CLUS_5
  NPHS1 MUTATED        0      1      3      3      3
  NPHS1 WILD-TYPE     39     31     40     27     29
D216V6, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             3              40
  CLUS_4             3              27
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NPHS1 MUTATED        5     13      6
  NPHS1 WILD-TYPE    145    172    137
D216V7, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             5             145
  CLUS_2            13             172
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NPHS1 MUTATED        3      8      5      1      4      1      2
  NPHS1 WILD-TYPE     69    101     85     43     45     45     66
D216V8, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             8             101
  CLUS_3             5              85
  CLUS_4             1              43
  CLUS_5             4              45
  CLUS_6             1              45
  CLUS_7             2              66
[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
  NPHS1 MUTATED        7     13      3
  NPHS1 WILD-TYPE    168    198     87
D216V9, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             7             168
  CLUS_2            13             198
  CLUS_3             3              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
  NPHS1 MUTATED        1      9      5      8
  NPHS1 WILD-TYPE     69    177    126     81
D216V10, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             9             177
  CLUS_3             5             126
  CLUS_4             8              81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NPHS1 MUTATED        7     10      4
  NPHS1 WILD-TYPE    134    172     85
D216V11, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             7             134
  CLUS_2            10             172
  CLUS_3             4              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
  NPHS1 MUTATED        2     15      4
  NPHS1 WILD-TYPE     92    218     81
D216V12, multiclass
        clus
vv       NPHS1 MUTATED NPHS1 WILD-TYPE
  CLUS_1             2              92
  CLUS_2            15             218
  CLUS_3             4              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"

Clustering(217) Variable = KDR MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDR MUTATED        0      0      2      0
  KDR WILD-TYPE      5      7      3      3
D217V1, multiclass
[1] "Remove cluster labels:" "KDR MUTATED"           
clus
  KDR MUTATED KDR WILD-TYPE 
            2            18 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        2      0      0
  KDR WILD-TYPE      5      9      4
D217V2, multiclass
[1] "Remove cluster labels:" "KDR MUTATED"           
clus
  KDR MUTATED KDR WILD-TYPE 
            2            18 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772 
"KDR WILD-TYPE" "KDR WILD-TYPE" "KDR WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDR MUTATED        5     16      6     15
  KDR WILD-TYPE     60    194     66    116
D217V3, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           5            60
  CLUS_2          16           194
  CLUS_3           6            66
  CLUS_4          15           116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        8     14     15
  KDR WILD-TYPE    123    124    146
D217V4, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           8           123
  CLUS_2          14           124
  CLUS_3          15           146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        3      6      2
  KDR WILD-TYPE     39     65     61
D217V5, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           3            39
  CLUS_2           6            65
  CLUS_3           2            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
  KDR MUTATED        2      2      4      2      1
  KDR WILD-TYPE     37     30     39     28     31
D217V6, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           2            37
  CLUS_2           2            30
  CLUS_3           4            39
  CLUS_4           2            28
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        9     23     11
  KDR WILD-TYPE    141    162    132
D217V7, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           9           141
  CLUS_2          23           162
  CLUS_3          11           132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KDR MUTATED        4     12     11      3      4      5      4
  KDR WILD-TYPE     68     97     79     41     45     41     64
D217V8, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           4            68
  CLUS_2          12            97
  CLUS_3          11            79
  CLUS_4           3            41
  CLUS_5           4            45
  CLUS_6           5            41
  CLUS_7           4            64
[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
  KDR MUTATED       12     23      6
  KDR WILD-TYPE    163    188     84
D217V9, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1          12           163
  CLUS_2          23           188
  CLUS_3           6            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
  KDR MUTATED        9     18      2     12
  KDR WILD-TYPE     61    168    129     77
D217V10, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           9            61
  CLUS_2          18           168
  CLUS_3           2           129
  CLUS_4          12            77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  KDR MUTATED        6     17     12
  KDR WILD-TYPE    135    165     77
D217V11, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           6           135
  CLUS_2          17           165
  CLUS_3          12            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
  KDR MUTATED        4     27      4
  KDR WILD-TYPE     90    206     81
D217V12, multiclass
        clus
vv       KDR MUTATED KDR WILD-TYPE
  CLUS_1           4            90
  CLUS_2          27           206
  CLUS_3           4            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"

Clustering(218) Variable = LDB2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LDB2 MUTATED        0      0      0      0
  LDB2 WILD-TYPE      5      7      5      3
D218V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDB2 MUTATED        0      0      0
  LDB2 WILD-TYPE      7      9      4
D218V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LDB2 MUTATED        5      3      2      9
  LDB2 WILD-TYPE     60    207     70    122
D218V3, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            5             60
  CLUS_2            3            207
  CLUS_3            2             70
  CLUS_4            9            122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDB2 MUTATED        2      9      6
  LDB2 WILD-TYPE    129    129    155
D218V4, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            9            129
  CLUS_3            6            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDB2 MUTATED        0      3      0
  LDB2 WILD-TYPE     42     68     63
D218V5, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            3             68
  CLUS_3            0             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 CLUS_4 CLUS_5
  LDB2 MUTATED        0      1      2      0      0
  LDB2 WILD-TYPE     39     31     41     30     32
D218V6, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            2             41
  CLUS_4            0             30
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDB2 MUTATED        4      9      6
  LDB2 WILD-TYPE    146    176    137
D218V7, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            4            146
  CLUS_2            9            176
  CLUS_3            6            137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LDB2 MUTATED        3      7      3      2      3      0      1
  LDB2 WILD-TYPE     69    102     87     42     46     46     67
D218V8, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            3             69
  CLUS_2            7            102
  CLUS_3            3             87
  CLUS_4            2             42
  CLUS_5            3             46
  CLUS_6            0             46
  CLUS_7            1             67
[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
  LDB2 MUTATED        2     12      5
  LDB2 WILD-TYPE    173    199     85
D218V9, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            2            173
  CLUS_2           12            199
  CLUS_3            5             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
  LDB2 MUTATED        1     11      0      7
  LDB2 WILD-TYPE     69    175    131     82
D218V10, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2           11            175
  CLUS_3            0            131
  CLUS_4            7             82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LDB2 MUTATED        3      8      6
  LDB2 WILD-TYPE    138    174     83
D218V11, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            8            174
  CLUS_3            6             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
  LDB2 MUTATED        2     12      3
  LDB2 WILD-TYPE     92    221     82
D218V12, multiclass
        clus
vv       LDB2 MUTATED LDB2 WILD-TYPE
  CLUS_1            2             92
  CLUS_2           12            221
  CLUS_3            3             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"

Clustering(219) Variable = FIBP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FIBP MUTATED        0      0      0      0
  FIBP WILD-TYPE      5      7      5      3
D219V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FIBP MUTATED        0      0      0
  FIBP WILD-TYPE      7      9      4
D219V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FIBP MUTATED        1      0      0      4
  FIBP WILD-TYPE     64    210     72    127
D219V3, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            1             64
  CLUS_2            0            210
  CLUS_3            0             72
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FIBP MUTATED        0      1      4
  FIBP WILD-TYPE    131    137    157
D219V4, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            0            131
  CLUS_2            1            137
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FIBP MUTATED        3      0      0
  FIBP WILD-TYPE     39     71     63
D219V5, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            3             39
  CLUS_2            0             71
  CLUS_3            0             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 CLUS_4 CLUS_5
  FIBP MUTATED        0      0      0      0      3
  FIBP WILD-TYPE     39     32     43     30     29
D219V6, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            0             43
  CLUS_4            0             30
  CLUS_5            3             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FIBP MUTATED        0      3      2
  FIBP WILD-TYPE    150    182    141
D219V7, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            0            150
  CLUS_2            3            182
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FIBP MUTATED        1      3      0      1      0      0      0
  FIBP WILD-TYPE     71    106     90     43     49     46     68
D219V8, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            0             90
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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
  FIBP MUTATED        2      3      0
  FIBP WILD-TYPE    173    208     90
D219V9, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            2            173
  CLUS_2            3            208
  CLUS_3            0             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
  FIBP MUTATED        0      2      2      1
  FIBP WILD-TYPE     70    184    129     88
D219V10, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            184
  CLUS_3            2            129
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FIBP MUTATED        2      2      0
  FIBP WILD-TYPE    139    180     89
D219V11, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            2            139
  CLUS_2            2            180
  CLUS_3            0             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
  FIBP MUTATED        1      3      0
  FIBP WILD-TYPE     93    230     85
D219V12, multiclass
        clus
vv       FIBP MUTATED FIBP WILD-TYPE
  CLUS_1            1             93
  CLUS_2            3            230
  CLUS_3            0             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"

Clustering(220) Variable = MSH2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH2 MUTATED        0      0      0      0
  MSH2 WILD-TYPE      5      7      5      3
D220V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        0      0      0
  MSH2 WILD-TYPE      7      9      4
D220V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSH2 MUTATED        1      4      3      3
  MSH2 WILD-TYPE     64    206     69    128
D220V3, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            4            206
  CLUS_3            3             69
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        3      3      4
  MSH2 WILD-TYPE    128    135    157
D220V4, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            3            135
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        0      1      1
  MSH2 WILD-TYPE     42     70     62
D220V5, multiclass
[1] "Remove cluster labels:" "MSH2 MUTATED"          
clus
  MSH2 MUTATED MSH2 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4418 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5932     TCGA-50-5933     TCGA-50-5936 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-7109     TCGA-53-7626     TCGA-53-7813     TCGA-55-1592 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-6543     TCGA-55-6712     TCGA-55-6970     TCGA-55-6971 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6981     TCGA-55-6982 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7728     TCGA-55-7815 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-7911     TCGA-64-1676     TCGA-64-1677     TCGA-64-1679 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-64-1681     TCGA-64-5774     TCGA-64-5778     TCGA-64-5781 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSH2 MUTATED        0      1      1      0      0
  MSH2 WILD-TYPE     39     31     42     30     32
D220V6, multiclass
[1] "Remove cluster labels:" "MSH2 MUTATED"          
clus
  MSH2 MUTATED MSH2 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4418 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5932     TCGA-50-5933     TCGA-50-5936 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-50-7109     TCGA-53-7626     TCGA-53-7813     TCGA-55-1592 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-6543     TCGA-55-6712     TCGA-55-6970     TCGA-55-6971 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6981     TCGA-55-6982 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7728     TCGA-55-7815 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-55-7911     TCGA-64-1676     TCGA-64-1677     TCGA-64-1679 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-64-1681     TCGA-64-5774     TCGA-64-5778     TCGA-64-5781 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"MSH2 WILD-TYPE" "MSH2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        2      7      2
  MSH2 WILD-TYPE    148    178    141
D220V7, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            7            178
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MSH2 MUTATED        1      4      4      0      1      1      0
  MSH2 WILD-TYPE     71    105     86     44     48     45     68
D220V8, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            4            105
  CLUS_3            4             86
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  MSH2 MUTATED        2      6      2
  MSH2 WILD-TYPE    173    205     88
D220V9, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            6            205
  CLUS_3            2             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
  MSH2 MUTATED        1      3      2      4
  MSH2 WILD-TYPE     69    183    129     85
D220V10, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            2            129
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSH2 MUTATED        2      6      2
  MSH2 WILD-TYPE    139    176     87
D220V11, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            6            176
  CLUS_3            2             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
  MSH2 MUTATED        2      6      2
  MSH2 WILD-TYPE     92    227     83
D220V12, multiclass
        clus
vv       MSH2 MUTATED MSH2 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            6            227
  CLUS_3            2             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"

Clustering(221) Variable = PARD3B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARD3B MUTATED        1      0      0      0
  PARD3B WILD-TYPE      4      7      5      3
D221V1, multiclass
[1] "Remove cluster labels:" "PARD3B MUTATED"        
clus
  PARD3B MUTATED PARD3B WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-64-1676       TCGA-64-1677 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARD3B MUTATED        0      0      1
  PARD3B WILD-TYPE      7      9      3
D221V2, multiclass
[1] "Remove cluster labels:" "PARD3B MUTATED"        
clus
  PARD3B MUTATED PARD3B WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-64-1676       TCGA-64-1677 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"PARD3B WILD-TYPE" "PARD3B WILD-TYPE" "PARD3B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PARD3B MUTATED        4     10      5      8
  PARD3B WILD-TYPE     61    200     67    123
D221V3, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              4               61
  CLUS_2             10              200
  CLUS_3              5               67
  CLUS_4              8              123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARD3B MUTATED        4      8     11
  PARD3B WILD-TYPE    127    130    150
D221V4, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              4              127
  CLUS_2              8              130
  CLUS_3             11              150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARD3B MUTATED        3      4      4
  PARD3B WILD-TYPE     39     67     59
D221V5, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4               67
  CLUS_3              4               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 CLUS_4 CLUS_5
  PARD3B MUTATED        1      3      3      1      3
  PARD3B WILD-TYPE     38     29     40     29     29
D221V6, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              1               38
  CLUS_2              3               29
  CLUS_3              3               40
  CLUS_4              1               29
  CLUS_5              3               29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARD3B MUTATED        5     13      9
  PARD3B WILD-TYPE    145    172    134
D221V7, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              5              145
  CLUS_2             13              172
  CLUS_3              9              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PARD3B MUTATED        3      6      2      3      3      6      4
  PARD3B WILD-TYPE     69    103     88     41     46     40     64
D221V8, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              3               69
  CLUS_2              6              103
  CLUS_3              2               88
  CLUS_4              3               41
  CLUS_5              3               46
  CLUS_6              6               40
  CLUS_7              4               64
[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
  PARD3B MUTATED        7     12      6
  PARD3B WILD-TYPE    168    199     84
D221V9, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              7              168
  CLUS_2             12              199
  CLUS_3              6               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
  PARD3B MUTATED        3     11      6      5
  PARD3B WILD-TYPE     67    175    125     84
D221V10, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              3               67
  CLUS_2             11              175
  CLUS_3              6              125
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PARD3B MUTATED        7      9      5
  PARD3B WILD-TYPE    134    173     84
D221V11, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              7              134
  CLUS_2              9              173
  CLUS_3              5               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
  PARD3B MUTATED        0     16      5
  PARD3B WILD-TYPE     94    217     80
D221V12, multiclass
        clus
vv       PARD3B MUTATED PARD3B WILD-TYPE
  CLUS_1              0               94
  CLUS_2             16              217
  CLUS_3              5               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"

Clustering(222) Variable = LARS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARS MUTATED        0      0      0      1
  LARS WILD-TYPE      5      7      5      2
D222V1, multiclass
[1] "Remove cluster labels:" "LARS MUTATED"          
clus
  LARS MUTATED LARS WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1592     TCGA-55-1595     TCGA-64-1676 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-64-1677     TCGA-67-3772     TCGA-67-3773 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LARS MUTATED        0      0      1
  LARS WILD-TYPE      7      9      3
D222V2, multiclass
[1] "Remove cluster labels:" "LARS MUTATED"          
clus
  LARS MUTATED LARS WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1592     TCGA-55-1595     TCGA-64-1676 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
    TCGA-64-1677     TCGA-67-3772     TCGA-67-3773 
"LARS WILD-TYPE" "LARS WILD-TYPE" "LARS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARS MUTATED        2      0      4      2
  LARS WILD-TYPE     63    210     68    129
D222V3, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            2             63
  CLUS_2            0            210
  CLUS_3            4             68
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LARS MUTATED        0      6      0
  LARS WILD-TYPE    131    132    161
D222V4, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0            131
  CLUS_2            6            132
  CLUS_3            0            161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LARS MUTATED        0      0      4
  LARS WILD-TYPE     42     71     59
D222V5, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0             71
  CLUS_3            4             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 CLUS_4 CLUS_5
  LARS MUTATED        0      2      1      1      0
  LARS WILD-TYPE     39     30     42     29     32
D222V6, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0             39
  CLUS_2            2             30
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LARS MUTATED        0      3      5
  LARS WILD-TYPE    150    182    138
D222V7, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0            150
  CLUS_2            3            182
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LARS MUTATED        0      0      5      0      2      1      0
  LARS WILD-TYPE     72    109     85     44     47     45     68
D222V8, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0             72
  CLUS_2            0            109
  CLUS_3            5             85
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            0             68
[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
  LARS MUTATED        0      8      0
  LARS WILD-TYPE    175    203     90
D222V9, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0            175
  CLUS_2            8            203
  CLUS_3            0             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
  LARS MUTATED        0      3      0      5
  LARS WILD-TYPE     70    183    131     84
D222V10, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            183
  CLUS_3            0            131
  CLUS_4            5             84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LARS MUTATED        2      4      0
  LARS WILD-TYPE    139    178     89
D222V11, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            2            139
  CLUS_2            4            178
  CLUS_3            0             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
  LARS MUTATED        0      6      0
  LARS WILD-TYPE     94    227     85
D222V12, multiclass
        clus
vv       LARS MUTATED LARS WILD-TYPE
  CLUS_1            0             94
  CLUS_2            6            227
  CLUS_3            0             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"

Clustering(223) Variable = LCE2B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCE2B MUTATED        0      0      0      0
  LCE2B WILD-TYPE      5      7      5      3
D223V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LCE2B MUTATED        0      0      0
  LCE2B WILD-TYPE      7      9      4
D223V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCE2B MUTATED        1      0      3      4
  LCE2B WILD-TYPE     64    210     69    127
D223V3, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             1              64
  CLUS_2             0             210
  CLUS_3             3              69
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LCE2B MUTATED        0      4      3
  LCE2B WILD-TYPE    131    134    158
D223V4, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             0             131
  CLUS_2             4             134
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LCE2B MUTATED        0      0      2
  LCE2B WILD-TYPE     42     71     61
D223V5, multiclass
[1] "Remove cluster labels:" "LCE2B MUTATED"         
clus
  LCE2B MUTATED LCE2B WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7149      TCGA-78-7150 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LCE2B MUTATED        0      1      1      0      0
  LCE2B WILD-TYPE     39     31     42     30     32
D223V6, multiclass
[1] "Remove cluster labels:" "LCE2B MUTATED"         
clus
  LCE2B MUTATED LCE2B WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7149      TCGA-78-7150 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"LCE2B WILD-TYPE" "LCE2B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LCE2B MUTATED        0      5      3
  LCE2B WILD-TYPE    150    180    140
D223V7, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             0             150
  CLUS_2             5             180
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LCE2B MUTATED        0      2      4      0      1      1      0
  LCE2B WILD-TYPE     72    107     86     44     48     45     68
D223V8, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  LCE2B MUTATED        1      6      1
  LCE2B WILD-TYPE    174    205     89
D223V9, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             1              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
  LCE2B MUTATED        1      4      0      3
  LCE2B WILD-TYPE     69    182    131     86
D223V10, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LCE2B MUTATED        1      3      3
  LCE2B WILD-TYPE    140    179     86
D223V11, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             1             140
  CLUS_2             3             179
  CLUS_3             3              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
  LCE2B MUTATED        0      5      2
  LCE2B WILD-TYPE     94    228     83
D223V12, multiclass
        clus
vv       LCE2B MUTATED LCE2B WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             2              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"

Clustering(224) Variable = NTHL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTHL1 MUTATED        0      0      0      0
  NTHL1 WILD-TYPE      5      7      5      3
D224V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTHL1 MUTATED        0      0      0
  NTHL1 WILD-TYPE      7      9      4
D224V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NTHL1 MUTATED        1      2      3      0
  NTHL1 WILD-TYPE     64    208     69    131
D224V3, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             3              69
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTHL1 MUTATED        2      3      1
  NTHL1 WILD-TYPE    129    135    160
D224V4, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             3             135
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTHL1 MUTATED        0      0      1
  NTHL1 WILD-TYPE     42     71     62
D224V5, multiclass
[1] "Remove cluster labels:" "NTHL1 MUTATED"         
clus
  NTHL1 MUTATED NTHL1 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NTHL1 MUTATED        0      1      0      0      0
  NTHL1 WILD-TYPE     39     31     43     30     32
D224V6, multiclass
[1] "Remove cluster labels:" "NTHL1 MUTATED"         
clus
  NTHL1 MUTATED NTHL1 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" "NTHL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTHL1 MUTATED        1      2      3
  NTHL1 WILD-TYPE    149    183    140
D224V7, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             2             183
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NTHL1 MUTATED        1      1      1      0      0      2      1
  NTHL1 WILD-TYPE     71    108     89     44     49     44     67
D224V8, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             2              44
  CLUS_7             1              67
[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
  NTHL1 MUTATED        1      4      1
  NTHL1 WILD-TYPE    174    207     89
D224V9, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             4             207
  CLUS_3             1              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
  NTHL1 MUTATED        0      2      1      3
  NTHL1 WILD-TYPE     70    184    130     86
D224V10, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             1             130
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NTHL1 MUTATED        0      6      0
  NTHL1 WILD-TYPE    141    176     89
D224V11, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             6             176
  CLUS_3             0              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
  NTHL1 MUTATED        1      5      0
  NTHL1 WILD-TYPE     93    228     85
D224V12, multiclass
        clus
vv       NTHL1 MUTATED NTHL1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             5             228
  CLUS_3             0              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"

Clustering(225) Variable = UBAP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBAP2 MUTATED        0      1      0      0
  UBAP2 WILD-TYPE      5      6      5      3
D225V1, multiclass
[1] "Remove cluster labels:" "UBAP2 MUTATED"         
clus
  UBAP2 MUTATED UBAP2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBAP2 MUTATED        0      1      0
  UBAP2 WILD-TYPE      7      8      4
D225V2, multiclass
[1] "Remove cluster labels:" "UBAP2 MUTATED"         
clus
  UBAP2 MUTATED UBAP2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" "UBAP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UBAP2 MUTATED        2      4      0      5
  UBAP2 WILD-TYPE     63    206     72    126
D225V3, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4             206
  CLUS_3             0              72
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBAP2 MUTATED        1      3      5
  UBAP2 WILD-TYPE    130    135    156
D225V4, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             3             135
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBAP2 MUTATED        1      2      2
  UBAP2 WILD-TYPE     41     69     61
D225V5, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             2              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
  UBAP2 MUTATED        0      1      2      1      1
  UBAP2 WILD-TYPE     39     31     41     29     31
D225V6, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBAP2 MUTATED        3      5      3
  UBAP2 WILD-TYPE    147    180    140
D225V7, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             5             180
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  UBAP2 MUTATED        1      4      2      1      1      1      1
  UBAP2 WILD-TYPE     71    105     88     43     48     45     67
D225V8, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             1              67
[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
  UBAP2 MUTATED        3      7      1
  UBAP2 WILD-TYPE    172    204     89
D225V9, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             1              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
  UBAP2 MUTATED        3      3      1      4
  UBAP2 WILD-TYPE     67    183    130     85
D225V10, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  UBAP2 MUTATED        3      3      2
  UBAP2 WILD-TYPE    138    179     87
D225V11, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             2              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
  UBAP2 MUTATED        2      6      0
  UBAP2 WILD-TYPE     92    227     85
D225V12, multiclass
        clus
vv       UBAP2 MUTATED UBAP2 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             6             227
  CLUS_3             0              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"

Clustering(226) Variable = MATR3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MATR3 MUTATED        0      0      0      0
  MATR3 WILD-TYPE      5      7      5      3
D226V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATR3 MUTATED        0      0      0
  MATR3 WILD-TYPE      7      9      4
D226V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MATR3 MUTATED        0      2      1      4
  MATR3 WILD-TYPE     65    208     71    127
D226V3, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             1              71
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATR3 MUTATED        0      3      3
  MATR3 WILD-TYPE    131    135    158
D226V4, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATR3 MUTATED        1      1      0
  MATR3 WILD-TYPE     41     70     63
D226V5, multiclass
[1] "Remove cluster labels:" "MATR3 MUTATED"         
clus
  MATR3 MUTATED MATR3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6970      TCGA-55-6971 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MATR3 MUTATED        0      1      1      0      0
  MATR3 WILD-TYPE     39     31     42     30     32
D226V6, multiclass
[1] "Remove cluster labels:" "MATR3 MUTATED"         
clus
  MATR3 MUTATED MATR3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6970      TCGA-55-6971 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"MATR3 WILD-TYPE" "MATR3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATR3 MUTATED        0      3      4
  MATR3 WILD-TYPE    150    182    139
D226V7, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             3             182
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MATR3 MUTATED        0      4      2      1      0      0      0
  MATR3 WILD-TYPE     72    105     88     43     49     46     68
D226V8, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             0              68
[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
  MATR3 MUTATED        4      3      0
  MATR3 WILD-TYPE    171    208     90
D226V9, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             3             208
  CLUS_3             0              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
  MATR3 MUTATED        1      2      1      3
  MATR3 WILD-TYPE     69    184    130     86
D226V10, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             1             130
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MATR3 MUTATED        1      5      0
  MATR3 WILD-TYPE    140    177     89
D226V11, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             5             177
  CLUS_3             0              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
  MATR3 MUTATED        0      5      1
  MATR3 WILD-TYPE     94    228     84
D226V12, multiclass
        clus
vv       MATR3 MUTATED MATR3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             1              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"

Clustering(227) Variable = CD34 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD34 MUTATED        0      0      0      0
  CD34 WILD-TYPE      5      7      5      3
D227V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        0      0      0
  CD34 WILD-TYPE      7      9      4
D227V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD34 MUTATED        1      4      2      3
  CD34 WILD-TYPE     64    206     70    128
D227V3, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            4            206
  CLUS_3            2             70
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        1      5      3
  CD34 WILD-TYPE    130    133    158
D227V4, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            5            133
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        0      0      1
  CD34 WILD-TYPE     42     71     62
D227V5, multiclass
[1] "Remove cluster labels:" "CD34 MUTATED"          
clus
  CD34 MUTATED CD34 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-6178     TCGA-44-2656 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD34 MUTATED        0      0      1      0      0
  CD34 WILD-TYPE     39     32     42     30     32
D227V6, multiclass
[1] "Remove cluster labels:" "CD34 MUTATED"          
clus
  CD34 MUTATED CD34 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-6178     TCGA-44-2656 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"CD34 WILD-TYPE" "CD34 WILD-TYPE" "CD34 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        2      7      1
  CD34 WILD-TYPE    148    178    142
D227V7, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            7            178
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CD34 MUTATED        0      2      2      1      1      3      1
  CD34 WILD-TYPE     72    107     88     43     48     43     67
D227V8, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            2             88
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            3             43
  CLUS_7            1             67
[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
  CD34 MUTATED        1      6      3
  CD34 WILD-TYPE    174    205     87
D227V9, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1            174
  CLUS_2            6            205
  CLUS_3            3             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
  CD34 MUTATED        1      8      0      1
  CD34 WILD-TYPE     69    178    131     88
D227V10, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            8            178
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CD34 MUTATED        2      5      2
  CD34 WILD-TYPE    139    177     87
D227V11, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            5            177
  CLUS_3            2             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
  CD34 MUTATED        0      8      1
  CD34 WILD-TYPE     94    225     84
D227V12, multiclass
        clus
vv       CD34 MUTATED CD34 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            8            225
  CLUS_3            1             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"

Clustering(228) Variable = BRD9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRD9 MUTATED        0      0      0      0
  BRD9 WILD-TYPE      5      7      5      3
D228V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD9 MUTATED        0      0      0
  BRD9 WILD-TYPE      7      9      4
D228V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRD9 MUTATED        0      2      0      3
  BRD9 WILD-TYPE     65    208     72    128
D228V3, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            2            208
  CLUS_3            0             72
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD9 MUTATED        2      2      1
  BRD9 WILD-TYPE    129    136    160
D228V4, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            2            136
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD9 MUTATED        1      0      0
  BRD9 WILD-TYPE     41     71     63
D228V5, multiclass
[1] "Remove cluster labels:" "BRD9 MUTATED"          
clus
  BRD9 MUTATED BRD9 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4396     TCGA-05-4398     TCGA-05-4402 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRD9 MUTATED        0      1      0      0      0
  BRD9 WILD-TYPE     39     31     43     30     32
D228V6, multiclass
[1] "Remove cluster labels:" "BRD9 MUTATED"          
clus
  BRD9 MUTATED BRD9 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4396     TCGA-05-4398     TCGA-05-4402 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"BRD9 WILD-TYPE" "BRD9 WILD-TYPE" "BRD9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD9 MUTATED        0      2      3
  BRD9 WILD-TYPE    150    183    140
D228V7, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            0            150
  CLUS_2            2            183
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BRD9 MUTATED        0      2      1      1      0      1      0
  BRD9 WILD-TYPE     72    107     89     43     49     45     68
D228V8, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            1             89
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            0             68
[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
  BRD9 MUTATED        2      3      0
  BRD9 WILD-TYPE    173    208     90
D228V9, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            3            208
  CLUS_3            0             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
  BRD9 MUTATED        1      2      0      2
  BRD9 WILD-TYPE     69    184    131     87
D228V10, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            184
  CLUS_3            0            131
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRD9 MUTATED        2      3      0
  BRD9 WILD-TYPE    139    179     89
D228V11, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            3            179
  CLUS_3            0             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
  BRD9 MUTATED        1      4      0
  BRD9 WILD-TYPE     93    229     85
D228V12, multiclass
        clus
vv       BRD9 MUTATED BRD9 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            4            229
  CLUS_3            0             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"

Clustering(229) Variable = BTAF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTAF1 MUTATED        1      0      0      0
  BTAF1 WILD-TYPE      4      7      5      3
D229V1, multiclass
[1] "Remove cluster labels:" "BTAF1 MUTATED"         
clus
  BTAF1 MUTATED BTAF1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-64-1676      TCGA-64-1677 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTAF1 MUTATED        0      0      1
  BTAF1 WILD-TYPE      7      9      3
D229V2, multiclass
[1] "Remove cluster labels:" "BTAF1 MUTATED"         
clus
  BTAF1 MUTATED BTAF1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-64-1676      TCGA-64-1677 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" "BTAF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BTAF1 MUTATED        3      5      7      8
  BTAF1 WILD-TYPE     62    205     65    123
D229V3, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             5             205
  CLUS_3             7              65
  CLUS_4             8             123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTAF1 MUTATED        0     10      8
  BTAF1 WILD-TYPE    131    128    153
D229V4, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2            10             128
  CLUS_3             8             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTAF1 MUTATED        2      3      3
  BTAF1 WILD-TYPE     40     68     60
D229V5, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3              68
  CLUS_3             3              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
  BTAF1 MUTATED        1      3      1      1      2
  BTAF1 WILD-TYPE     38     29     42     29     30
D229V6, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             3              29
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTAF1 MUTATED        3      9     11
  BTAF1 WILD-TYPE    147    176    132
D229V7, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             9             176
  CLUS_3            11             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BTAF1 MUTATED        0      5      5      3      6      3      1
  BTAF1 WILD-TYPE     72    104     85     41     43     43     67
D229V8, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             5             104
  CLUS_3             5              85
  CLUS_4             3              41
  CLUS_5             6              43
  CLUS_6             3              43
  CLUS_7             1              67
[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
  BTAF1 MUTATED        5     15      2
  BTAF1 WILD-TYPE    170    196     88
D229V9, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             5             170
  CLUS_2            15             196
  CLUS_3             2              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
  BTAF1 MUTATED        4      9      1      8
  BTAF1 WILD-TYPE     66    177    130     81
D229V10, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             9             177
  CLUS_3             1             130
  CLUS_4             8              81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BTAF1 MUTATED        6      7      5
  BTAF1 WILD-TYPE    135    175     84
D229V11, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             6             135
  CLUS_2             7             175
  CLUS_3             5              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
  BTAF1 MUTATED        3     13      2
  BTAF1 WILD-TYPE     91    220     83
D229V12, multiclass
        clus
vv       BTAF1 MUTATED BTAF1 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            13             220
  CLUS_3             2              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"

Clustering(230) Variable = RGS20 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RGS20 MUTATED        0      0      0      0
  RGS20 WILD-TYPE      5      7      5      3
D230V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS20 MUTATED        0      0      0
  RGS20 WILD-TYPE      7      9      4
D230V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RGS20 MUTATED        2      2      0      3
  RGS20 WILD-TYPE     63    208     72    128
D230V3, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS20 MUTATED        0      2      4
  RGS20 WILD-TYPE    131    136    157
D230V4, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS20 MUTATED        1      1      0
  RGS20 WILD-TYPE     41     70     63
D230V5, multiclass
[1] "Remove cluster labels:" "RGS20 MUTATED"         
clus
  RGS20 MUTATED RGS20 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7540      TCGA-78-7542 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RGS20 MUTATED        0      0      1      0      1
  RGS20 WILD-TYPE     39     32     42     30     31
D230V6, multiclass
[1] "Remove cluster labels:" "RGS20 MUTATED"         
clus
  RGS20 MUTATED RGS20 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7540      TCGA-78-7542 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"RGS20 WILD-TYPE" "RGS20 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS20 MUTATED        0      4      3
  RGS20 WILD-TYPE    150    181    140
D230V7, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RGS20 MUTATED        1      3      2      0      1      0      0
  RGS20 WILD-TYPE     71    106     88     44     48     46     68
D230V8, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             0              68
[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
  RGS20 MUTATED        0      6      1
  RGS20 WILD-TYPE    175    205     89
D230V9, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             6             205
  CLUS_3             1              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
  RGS20 MUTATED        0      4      0      3
  RGS20 WILD-TYPE     70    182    131     86
D230V10, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RGS20 MUTATED        2      4      0
  RGS20 WILD-TYPE    139    178     89
D230V11, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             0              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
  RGS20 MUTATED        2      4      0
  RGS20 WILD-TYPE     92    229     85
D230V12, multiclass
        clus
vv       RGS20 MUTATED RGS20 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             4             229
  CLUS_3             0              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"

Clustering(231) Variable = ITLN1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITLN1 MUTATED        0      0      0      0
  ITLN1 WILD-TYPE      5      7      5      3
D231V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITLN1 MUTATED        0      0      0
  ITLN1 WILD-TYPE      7      9      4
D231V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITLN1 MUTATED        0      6      3      0
  ITLN1 WILD-TYPE     65    204     69    131
D231V3, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             6             204
  CLUS_3             3              69
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITLN1 MUTATED        1      5      1
  ITLN1 WILD-TYPE    130    133    160
D231V4, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             5             133
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITLN1 MUTATED        2      0      0
  ITLN1 WILD-TYPE     40     71     63
D231V5, multiclass
[1] "Remove cluster labels:" "ITLN1 MUTATED"         
clus
  ITLN1 MUTATED ITLN1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITLN1 MUTATED        0      1      0      0      1
  ITLN1 WILD-TYPE     39     31     43     30     31
D231V6, multiclass
[1] "Remove cluster labels:" "ITLN1 MUTATED"         
clus
  ITLN1 MUTATED ITLN1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"ITLN1 WILD-TYPE" "ITLN1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITLN1 MUTATED        1      3      5
  ITLN1 WILD-TYPE    149    182    138
D231V7, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             3             182
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ITLN1 MUTATED        1      0      3      2      2      1      0
  ITLN1 WILD-TYPE     71    109     87     42     47     45     68
D231V8, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             0             109
  CLUS_3             3              87
  CLUS_4             2              42
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             0              68
[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
  ITLN1 MUTATED        1      6      2
  ITLN1 WILD-TYPE    174    205     88
D231V9, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             2              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
  ITLN1 MUTATED        1      3      1      4
  ITLN1 WILD-TYPE     69    183    130     85
D231V10, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITLN1 MUTATED        3      3      1
  ITLN1 WILD-TYPE    138    179     88
D231V11, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             1              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
  ITLN1 MUTATED        2      4      1
  ITLN1 WILD-TYPE     92    229     84
D231V12, multiclass
        clus
vv       ITLN1 MUTATED ITLN1 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             4             229
  CLUS_3             1              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"

Clustering(232) Variable = FIGNL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FIGNL1 MUTATED        0      0      0      0
  FIGNL1 WILD-TYPE      5      7      5      3
D232V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        0      0      0
  FIGNL1 WILD-TYPE      7      9      4
D232V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FIGNL1 MUTATED        1      3      2      4
  FIGNL1 WILD-TYPE     64    207     70    127
D232V3, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        1      3      7
  FIGNL1 WILD-TYPE    130    135    154
D232V4, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              3              135
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        0      3      1
  FIGNL1 WILD-TYPE     42     68     62
D232V5, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              3               68
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FIGNL1 MUTATED        1      1      0      2      0
  FIGNL1 WILD-TYPE     38     31     43     28     32
D232V6, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              0               43
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        3      4      4
  FIGNL1 WILD-TYPE    147    181    139
D232V7, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              3              147
  CLUS_2              4              181
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FIGNL1 MUTATED        2      3      2      1      0      2      1
  FIGNL1 WILD-TYPE     70    106     88     43     49     44     67
D232V8, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              2               70
  CLUS_2              3              106
  CLUS_3              2               88
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              1               67
[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
  FIGNL1 MUTATED        4      5      2
  FIGNL1 WILD-TYPE    171    206     88
D232V9, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              5              206
  CLUS_3              2               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
  FIGNL1 MUTATED        2      2      2      5
  FIGNL1 WILD-TYPE     68    184    129     84
D232V10, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              184
  CLUS_3              2              129
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FIGNL1 MUTATED        5      4      2
  FIGNL1 WILD-TYPE    136    178     87
D232V11, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              5              136
  CLUS_2              4              178
  CLUS_3              2               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
  FIGNL1 MUTATED        1      7      3
  FIGNL1 WILD-TYPE     93    226     82
D232V12, multiclass
        clus
vv       FIGNL1 MUTATED FIGNL1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              7              226
  CLUS_3              3               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"

Clustering(233) Variable = ABCF3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCF3 MUTATED        0      0      0      0
  ABCF3 WILD-TYPE      5      7      5      3
D233V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        0      0      0
  ABCF3 WILD-TYPE      7      9      4
D233V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCF3 MUTATED        0      3      2      3
  ABCF3 WILD-TYPE     65    207     70    128
D233V3, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             3             207
  CLUS_3             2              70
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        2      1      5
  ABCF3 WILD-TYPE    129    137    156
D233V4, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             1             137
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        0      1      1
  ABCF3 WILD-TYPE     42     70     62
D233V5, multiclass
[1] "Remove cluster labels:" "ABCF3 MUTATED"         
clus
  ABCF3 MUTATED ABCF3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4417      TCGA-05-4418 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABCF3 MUTATED        2      0      0      0      0
  ABCF3 WILD-TYPE     37     32     43     30     32
D233V6, multiclass
[1] "Remove cluster labels:" "ABCF3 MUTATED"         
clus
  ABCF3 MUTATED ABCF3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4417      TCGA-05-4418 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"ABCF3 WILD-TYPE" "ABCF3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        1      4      3
  ABCF3 WILD-TYPE    149    181    140
D233V7, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ABCF3 MUTATED        1      3      2      0      1      0      1
  ABCF3 WILD-TYPE     71    106     88     44     48     46     67
D233V8, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  ABCF3 MUTATED        2      4      2
  ABCF3 WILD-TYPE    173    207     88
D233V9, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             4             207
  CLUS_3             2              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
  ABCF3 MUTATED        0      2      2      4
  ABCF3 WILD-TYPE     70    184    129     85
D233V10, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             2             129
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCF3 MUTATED        2      3      3
  ABCF3 WILD-TYPE    139    179     86
D233V11, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             3             179
  CLUS_3             3              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
  ABCF3 MUTATED        0      5      3
  ABCF3 WILD-TYPE     94    228     82
D233V12, multiclass
        clus
vv       ABCF3 MUTATED ABCF3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             5             228
  CLUS_3             3              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"

Clustering(234) Variable = KSR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KSR1 MUTATED        0      0      0      0
  KSR1 WILD-TYPE      5      7      5      3
D234V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KSR1 MUTATED        0      0      0
  KSR1 WILD-TYPE      7      9      4
D234V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KSR1 MUTATED        2      4      1      5
  KSR1 WILD-TYPE     63    206     71    126
D234V3, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            4            206
  CLUS_3            1             71
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KSR1 MUTATED        2      5      4
  KSR1 WILD-TYPE    129    133    157
D234V4, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            5            133
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KSR1 MUTATED        0      0      3
  KSR1 WILD-TYPE     42     71     60
D234V5, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            0             71
  CLUS_3            3             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
  KSR1 MUTATED        0      0      1      1      1
  KSR1 WILD-TYPE     39     32     42     29     31
D234V6, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KSR1 MUTATED        1      7      4
  KSR1 WILD-TYPE    149    178    139
D234V7, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            7            178
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KSR1 MUTATED        2      4      5      1      0      0      0
  KSR1 WILD-TYPE     70    105     85     43     49     46     68
D234V8, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            2             70
  CLUS_2            4            105
  CLUS_3            5             85
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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
  KSR1 MUTATED        3      7      2
  KSR1 WILD-TYPE    172    204     88
D234V9, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            3            172
  CLUS_2            7            204
  CLUS_3            2             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
  KSR1 MUTATED        2      6      1      3
  KSR1 WILD-TYPE     68    180    130     86
D234V10, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            180
  CLUS_3            1            130
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KSR1 MUTATED        4      6      1
  KSR1 WILD-TYPE    137    176     88
D234V11, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            6            176
  CLUS_3            1             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
  KSR1 MUTATED        1      7      3
  KSR1 WILD-TYPE     93    226     82
D234V12, multiclass
        clus
vv       KSR1 MUTATED KSR1 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            7            226
  CLUS_3            3             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"

Clustering(235) Variable = ARAP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARAP3 MUTATED        0      0      0      0
  ARAP3 WILD-TYPE      5      7      5      3
D235V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        0      0      0
  ARAP3 WILD-TYPE      7      9      4
D235V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARAP3 MUTATED        4      6      2      5
  ARAP3 WILD-TYPE     61    204     70    126
D235V3, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             4              61
  CLUS_2             6             204
  CLUS_3             2              70
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        3      6      5
  ARAP3 WILD-TYPE    128    132    156
D235V4, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             6             132
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        2      0      1
  ARAP3 WILD-TYPE     40     71     62
D235V5, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0              71
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARAP3 MUTATED        0      2      0      0      1
  ARAP3 WILD-TYPE     39     30     43     30     31
D235V6, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             2              30
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        2      6      8
  ARAP3 WILD-TYPE    148    179    135
D235V7, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             6             179
  CLUS_3             8             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARAP3 MUTATED        2      4      4      3      2      1      0
  ARAP3 WILD-TYPE     70    105     86     41     47     45     68
D235V8, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             4             105
  CLUS_3             4              86
  CLUS_4             3              41
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             0              68
[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
  ARAP3 MUTATED        6      8      2
  ARAP3 WILD-TYPE    169    203     88
D235V9, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             6             169
  CLUS_2             8             203
  CLUS_3             2              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
  ARAP3 MUTATED        4      5      2      5
  ARAP3 WILD-TYPE     66    181    129     84
D235V10, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             5             181
  CLUS_3             2             129
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        4      8      2
  ARAP3 WILD-TYPE    137    174     87
D235V11, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             8             174
  CLUS_3             2              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
  ARAP3 MUTATED        6      7      1
  ARAP3 WILD-TYPE     88    226     84
D235V12, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             6              88
  CLUS_2             7             226
  CLUS_3             1              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"

Clustering(236) Variable = IPO9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IPO9 MUTATED        0      0      0      0
  IPO9 WILD-TYPE      5      7      5      3
D236V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPO9 MUTATED        0      0      0
  IPO9 WILD-TYPE      7      9      4
D236V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IPO9 MUTATED        1      1      2      5
  IPO9 WILD-TYPE     64    209     70    126
D236V3, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            1            209
  CLUS_3            2             70
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPO9 MUTATED        1      3      4
  IPO9 WILD-TYPE    130    135    157
D236V4, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPO9 MUTATED        1      2      0
  IPO9 WILD-TYPE     41     69     63
D236V5, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            0             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 CLUS_4 CLUS_5
  IPO9 MUTATED        1      0      2      0      0
  IPO9 WILD-TYPE     38     32     41     30     32
D236V6, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            0             30
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPO9 MUTATED        3      6      0
  IPO9 WILD-TYPE    147    179    143
D236V7, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            6            179
  CLUS_3            0            143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IPO9 MUTATED        1      1      6      0      0      0      1
  IPO9 WILD-TYPE     71    108     84     44     49     46     67
D236V8, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            1            108
  CLUS_3            6             84
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            1             67
[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
  IPO9 MUTATED        2      6      1
  IPO9 WILD-TYPE    173    205     89
D236V9, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            6            205
  CLUS_3            1             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
  IPO9 MUTATED        0      2      3      4
  IPO9 WILD-TYPE     70    184    128     85
D236V10, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            184
  CLUS_3            3            128
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IPO9 MUTATED        3      4      0
  IPO9 WILD-TYPE    138    178     89
D236V11, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            4            178
  CLUS_3            0             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
  IPO9 MUTATED        0      5      2
  IPO9 WILD-TYPE     94    228     83
D236V12, multiclass
        clus
vv       IPO9 MUTATED IPO9 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            5            228
  CLUS_3            2             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"

Clustering(237) Variable = SLC26A4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A4 MUTATED        0      0      0      0
  SLC26A4 WILD-TYPE      5      7      5      3
D237V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A4 MUTATED        0      0      0
  SLC26A4 WILD-TYPE      7      9      4
D237V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC26A4 MUTATED        3      2      2      4
  SLC26A4 WILD-TYPE     62    208     70    127
D237V3, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               3                62
  CLUS_2               2               208
  CLUS_3               2                70
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A4 MUTATED        0      6      4
  SLC26A4 WILD-TYPE    131    132    157
D237V4, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               6               132
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A4 MUTATED        0      2      3
  SLC26A4 WILD-TYPE     42     69     60
D237V5, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2                69
  CLUS_3               3                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
  SLC26A4 MUTATED        0      1      3      0      1
  SLC26A4 WILD-TYPE     39     31     40     30     31
D237V6, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               3                40
  CLUS_4               0                30
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A4 MUTATED        1      6      4
  SLC26A4 WILD-TYPE    149    179    139
D237V7, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               6               179
  CLUS_3               4               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC26A4 MUTATED        1      3      4      1      1      1      0
  SLC26A4 WILD-TYPE     71    106     86     43     48     45     68
D237V8, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               3               106
  CLUS_3               4                86
  CLUS_4               1                43
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               0                68
[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
  SLC26A4 MUTATED        1      6      4
  SLC26A4 WILD-TYPE    174    205     86
D237V9, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               6               205
  CLUS_3               4                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
  SLC26A4 MUTATED        0      6      1      4
  SLC26A4 WILD-TYPE     70    180    130     85
D237V10, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               6               180
  CLUS_3               1               130
  CLUS_4               4                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC26A4 MUTATED        3      4      3
  SLC26A4 WILD-TYPE    138    178     86
D237V11, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               4               178
  CLUS_3               3                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
  SLC26A4 MUTATED        1      8      1
  SLC26A4 WILD-TYPE     93    225     84
D237V12, multiclass
        clus
vv       SLC26A4 MUTATED SLC26A4 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               8               225
  CLUS_3               1                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"

Clustering(238) Variable = MOCOS MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOCOS MUTATED        0      0      0      0
  MOCOS WILD-TYPE      5      7      5      3
D238V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOCOS MUTATED        0      0      0
  MOCOS WILD-TYPE      7      9      4
D238V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOCOS MUTATED        1      3      2      3
  MOCOS WILD-TYPE     64    207     70    128
D238V3, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             1              64
  CLUS_2             3             207
  CLUS_3             2              70
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOCOS MUTATED        4      2      2
  MOCOS WILD-TYPE    127    136    159
D238V4, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             4             127
  CLUS_2             2             136
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOCOS MUTATED        0      4      1
  MOCOS WILD-TYPE     42     67     62
D238V5, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4              67
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MOCOS MUTATED        2      0      2      0      1
  MOCOS WILD-TYPE     37     32     41     30     31
D238V6, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOCOS MUTATED        2      6      1
  MOCOS WILD-TYPE    148    179    142
D238V7, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             2             148
  CLUS_2             6             179
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MOCOS MUTATED        0      3      4      0      0      0      2
  MOCOS WILD-TYPE     72    106     86     44     49     46     66
D238V8, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             2              66
[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
  MOCOS MUTATED        3      4      2
  MOCOS WILD-TYPE    172    207     88
D238V9, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             3             172
  CLUS_2             4             207
  CLUS_3             2              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
  MOCOS MUTATED        1      2      3      3
  MOCOS WILD-TYPE     69    184    128     86
D238V10, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MOCOS MUTATED        2      3      3
  MOCOS WILD-TYPE    139    179     86
D238V11, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             2             139
  CLUS_2             3             179
  CLUS_3             3              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
  MOCOS MUTATED        0      4      4
  MOCOS WILD-TYPE     94    229     81
D238V12, multiclass
        clus
vv       MOCOS MUTATED MOCOS WILD-TYPE
  CLUS_1             0              94
  CLUS_2             4             229
  CLUS_3             4              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"

Clustering(239) Variable = MOGAT2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOGAT2 MUTATED        0      0      0      0
  MOGAT2 WILD-TYPE      5      7      5      3
D239V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT2 MUTATED        0      0      0
  MOGAT2 WILD-TYPE      7      9      4
D239V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOGAT2 MUTATED        1      2      2      3
  MOGAT2 WILD-TYPE     64    208     70    128
D239V3, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              2               70
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT2 MUTATED        2      3      2
  MOGAT2 WILD-TYPE    129    135    159
D239V4, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              3              135
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT2 MUTATED        0      1      4
  MOGAT2 WILD-TYPE     42     70     59
D239V5, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1               70
  CLUS_3              4               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 CLUS_4 CLUS_5
  MOGAT2 MUTATED        1      1      1      2      0
  MOGAT2 WILD-TYPE     38     31     42     28     32
D239V6, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT2 MUTATED        1      4      3
  MOGAT2 WILD-TYPE    149    181    140
D239V7, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              4              181
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MOGAT2 MUTATED        0      1      2      0      2      2      1
  MOGAT2 WILD-TYPE     72    108     88     44     47     44     67
D239V8, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              1               67
[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
  MOGAT2 MUTATED        1      5      2
  MOGAT2 WILD-TYPE    174    206     88
D239V9, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              5              206
  CLUS_3              2               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
  MOGAT2 MUTATED        0      6      1      1
  MOGAT2 WILD-TYPE     70    180    130     88
D239V10, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              180
  CLUS_3              1              130
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT2 MUTATED        2      3      2
  MOGAT2 WILD-TYPE    139    179     87
D239V11, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              3              179
  CLUS_3              2               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
  MOGAT2 MUTATED        0      7      0
  MOGAT2 WILD-TYPE     94    226     85
D239V12, multiclass
        clus
vv       MOGAT2 MUTATED MOGAT2 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              7              226
  CLUS_3              0               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"

Clustering(240) Variable = ZKSCAN5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZKSCAN5 MUTATED        1      0      0      0
  ZKSCAN5 WILD-TYPE      4      7      5      3
D240V1, multiclass
[1] "Remove cluster labels:" "ZKSCAN5 MUTATED"       
clus
  ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN5 MUTATED        0      1      0
  ZKSCAN5 WILD-TYPE      7      8      4
D240V2, multiclass
[1] "Remove cluster labels:" "ZKSCAN5 MUTATED"       
clus
  ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" "ZKSCAN5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZKSCAN5 MUTATED        0      1      2      4
  ZKSCAN5 WILD-TYPE     65    209     70    127
D240V3, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               1               209
  CLUS_3               2                70
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN5 MUTATED        2      2      2
  ZKSCAN5 WILD-TYPE    129    136    159
D240V4, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               2               136
  CLUS_3               2               159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN5 MUTATED        0      3      0
  ZKSCAN5 WILD-TYPE     42     68     63
D240V5, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3                68
  CLUS_3               0                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 CLUS_4 CLUS_5
  ZKSCAN5 MUTATED        0      0      2      1      0
  ZKSCAN5 WILD-TYPE     39     32     41     29     32
D240V6, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               0                32
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN5 MUTATED        0      6      1
  ZKSCAN5 WILD-TYPE    150    179    142
D240V7, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0               150
  CLUS_2               6               179
  CLUS_3               1               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZKSCAN5 MUTATED        0      4      2      0      0      1      0
  ZKSCAN5 WILD-TYPE     72    105     88     44     49     45     68
D240V8, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               4               105
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               0                68
[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
  ZKSCAN5 MUTATED        0      6      1
  ZKSCAN5 WILD-TYPE    175    205     89
D240V9, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0               175
  CLUS_2               6               205
  CLUS_3               1                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
  ZKSCAN5 MUTATED        0      6      0      1
  ZKSCAN5 WILD-TYPE     70    180    131     88
D240V10, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               6               180
  CLUS_3               0               131
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZKSCAN5 MUTATED        0      3      3
  ZKSCAN5 WILD-TYPE    141    179     86
D240V11, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0               141
  CLUS_2               3               179
  CLUS_3               3                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
  ZKSCAN5 MUTATED        0      6      0
  ZKSCAN5 WILD-TYPE     94    227     85
D240V12, multiclass
        clus
vv       ZKSCAN5 MUTATED ZKSCAN5 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               6               227
  CLUS_3               0                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"

Clustering(241) Variable = GPR150 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR150 MUTATED        0      0      0      0
  GPR150 WILD-TYPE      5      7      5      3
D241V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR150 MUTATED        0      0      0
  GPR150 WILD-TYPE      7      9      4
D241V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR150 MUTATED        0      1      0      2
  GPR150 WILD-TYPE     65    209     72    129
D241V3, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0               65
  CLUS_2              1              209
  CLUS_3              0               72
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR150 MUTATED        0      0      3
  GPR150 WILD-TYPE    131    138    158
D241V4, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              0              138
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR150 MUTATED        0      1      0
  GPR150 WILD-TYPE     42     70     63
D241V5, multiclass
[1] "Remove cluster labels:" "GPR150 MUTATED"        
clus
  GPR150 MUTATED GPR150 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-80-5607       TCGA-80-5608 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7713       TCGA-91-6828 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-91-6829       TCGA-91-6835       TCGA-91-6840       TCGA-91-6847 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-91-6849       TCGA-91-7771       TCGA-93-7348       TCGA-95-7043 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR150 MUTATED        0      0      1      0      0
  GPR150 WILD-TYPE     39     32     42     30     32
D241V6, multiclass
[1] "Remove cluster labels:" "GPR150 MUTATED"        
clus
  GPR150 MUTATED GPR150 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-80-5607       TCGA-80-5608 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7713       TCGA-91-6828 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-91-6829       TCGA-91-6835       TCGA-91-6840       TCGA-91-6847 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-91-6849       TCGA-91-7771       TCGA-93-7348       TCGA-95-7043 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"GPR150 WILD-TYPE" "GPR150 WILD-TYPE" "GPR150 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR150 MUTATED        0      3      0
  GPR150 WILD-TYPE    150    182    143
D241V7, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              3              182
  CLUS_3              0              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GPR150 MUTATED        0      3      0      0      0      0      0
  GPR150 WILD-TYPE     72    106     90     44     49     46     68
D241V8, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              0               90
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              0               68
[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
  GPR150 MUTATED        0      1      2
  GPR150 WILD-TYPE    175    210     88
D241V9, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0              175
  CLUS_2              1              210
  CLUS_3              2               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
  GPR150 MUTATED        1      2      0      0
  GPR150 WILD-TYPE     69    184    131     89
D241V10, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2              184
  CLUS_3              0              131
  CLUS_4              0               89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR150 MUTATED        0      0      3
  GPR150 WILD-TYPE    141    182     86
D241V11, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0              141
  CLUS_2              0              182
  CLUS_3              3               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
  GPR150 MUTATED        0      3      0
  GPR150 WILD-TYPE     94    230     85
D241V12, multiclass
        clus
vv       GPR150 MUTATED GPR150 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              3              230
  CLUS_3              0               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"

Clustering(242) Variable = MGAT5B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGAT5B MUTATED        1      1      0      0
  MGAT5B WILD-TYPE      4      6      5      3
D242V1, multiclass
[1] "Remove cluster labels:" "MGAT5B MUTATED"        
clus
  MGAT5B MUTATED MGAT5B WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-55-1592       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MGAT5B MUTATED        0      1      1
  MGAT5B WILD-TYPE      7      8      3
D242V2, multiclass
[1] "Remove cluster labels:" "MGAT5B MUTATED"        
clus
  MGAT5B MUTATED MGAT5B WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-55-1592       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"MGAT5B WILD-TYPE" "MGAT5B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGAT5B MUTATED        2      6      4      7
  MGAT5B WILD-TYPE     63    204     68    124
D242V3, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6              204
  CLUS_3              4               68
  CLUS_4              7              124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MGAT5B MUTATED        2      9      7
  MGAT5B WILD-TYPE    129    129    154
D242V4, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              2              129
  CLUS_2              9              129
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MGAT5B MUTATED        0      1      3
  MGAT5B WILD-TYPE     42     70     60
D242V5, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1               70
  CLUS_3              3               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
  MGAT5B MUTATED        0      1      1      2      0
  MGAT5B WILD-TYPE     39     31     42     28     32
D242V6, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MGAT5B MUTATED        1     11      7
  MGAT5B WILD-TYPE    149    174    136
D242V7, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              1              149
  CLUS_2             11              174
  CLUS_3              7              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MGAT5B MUTATED        0      7      5      2      1      2      2
  MGAT5B WILD-TYPE     72    102     85     42     48     44     66
D242V8, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              0               72
  CLUS_2              7              102
  CLUS_3              5               85
  CLUS_4              2               42
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              2               66
[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
  MGAT5B MUTATED        5     11      3
  MGAT5B WILD-TYPE    170    200     87
D242V9, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              5              170
  CLUS_2             11              200
  CLUS_3              3               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
  MGAT5B MUTATED        3      9      1      6
  MGAT5B WILD-TYPE     67    177    130     83
D242V10, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              3               67
  CLUS_2              9              177
  CLUS_3              1              130
  CLUS_4              6               83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MGAT5B MUTATED        5     11      1
  MGAT5B WILD-TYPE    136    171     88
D242V11, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              5              136
  CLUS_2             11              171
  CLUS_3              1               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
  MGAT5B MUTATED        3     12      2
  MGAT5B WILD-TYPE     91    221     83
D242V12, multiclass
        clus
vv       MGAT5B MUTATED MGAT5B WILD-TYPE
  CLUS_1              3               91
  CLUS_2             12              221
  CLUS_3              2               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"

Clustering(243) Variable = AGXT MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGXT MUTATED        0      0      0      0
  AGXT WILD-TYPE      5      7      5      3
D243V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AGXT MUTATED        0      0      0
  AGXT WILD-TYPE      7      9      4
D243V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGXT MUTATED        0      1      3      4
  AGXT WILD-TYPE     65    209     69    127
D243V3, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            0             65
  CLUS_2            1            209
  CLUS_3            3             69
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AGXT MUTATED        1      3      4
  AGXT WILD-TYPE    130    135    157
D243V4, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AGXT MUTATED        0      0      2
  AGXT WILD-TYPE     42     71     61
D243V5, multiclass
[1] "Remove cluster labels:" "AGXT MUTATED"          
clus
  AGXT MUTATED AGXT WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-7659 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGXT MUTATED        0      0      1      1      0
  AGXT WILD-TYPE     39     32     42     29     32
D243V6, multiclass
[1] "Remove cluster labels:" "AGXT MUTATED"          
clus
  AGXT MUTATED AGXT WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-7659 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" "AGXT WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"AGXT WILD-TYPE" "AGXT WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AGXT MUTATED        1      5      2
  AGXT WILD-TYPE    149    180    141
D243V7, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            1            149
  CLUS_2            5            180
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AGXT MUTATED        0      5      0      0      1      2      0
  AGXT WILD-TYPE     72    104     90     44     48     44     68
D243V8, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            0             72
  CLUS_2            5            104
  CLUS_3            0             90
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            0             68
[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
  AGXT MUTATED        2      4      2
  AGXT WILD-TYPE    173    207     88
D243V9, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            2            173
  CLUS_2            4            207
  CLUS_3            2             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
  AGXT MUTATED        0      3      2      3
  AGXT WILD-TYPE     70    183    129     86
D243V10, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            0             70
  CLUS_2            3            183
  CLUS_3            2            129
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AGXT MUTATED        6      1      1
  AGXT WILD-TYPE    135    181     88
D243V11, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            6            135
  CLUS_2            1            181
  CLUS_3            1             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
  AGXT MUTATED        0      5      3
  AGXT WILD-TYPE     94    228     82
D243V12, multiclass
        clus
vv       AGXT MUTATED AGXT WILD-TYPE
  CLUS_1            0             94
  CLUS_2            5            228
  CLUS_3            3             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"

Clustering(244) Variable = PBRM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED        0      0      0      0
  PBRM1 WILD-TYPE      5      7      5      3
D244V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        0      0      0
  PBRM1 WILD-TYPE      7      9      4
D244V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED        0      4      2      2
  PBRM1 WILD-TYPE     65    206     70    129
D244V3, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             2              70
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        0      2      4
  PBRM1 WILD-TYPE    131    136    157
D244V4, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        1      2      0
  PBRM1 WILD-TYPE     41     69     63
D244V5, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             0              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 CLUS_4 CLUS_5
  PBRM1 MUTATED        1      0      1      0      1
  PBRM1 WILD-TYPE     38     32     42     30     31
D244V6, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        1      5      2
  PBRM1 WILD-TYPE    149    180    141
D244V7, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PBRM1 MUTATED        0      1      3      1      0      1      2
  PBRM1 WILD-TYPE     72    108     87     43     49     45     66
D244V8, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             2              66
[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
  PBRM1 MUTATED        2      4      2
  PBRM1 WILD-TYPE    173    207     88
D244V9, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             4             207
  CLUS_3             2              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
  PBRM1 MUTATED        2      3      0      3
  PBRM1 WILD-TYPE     68    183    131     86
D244V10, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             0             131
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        3      2      1
  PBRM1 WILD-TYPE    138    180     88
D244V11, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             2             180
  CLUS_3             1              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
  PBRM1 MUTATED        1      3      2
  PBRM1 WILD-TYPE     93    230     83
D244V12, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             3             230
  CLUS_3             2              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"

Clustering(245) Variable = CREB5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREB5 MUTATED        0      0      0      1
  CREB5 WILD-TYPE      5      7      5      2
D245V1, multiclass
[1] "Remove cluster labels:" "CREB5 MUTATED"         
clus
  CREB5 MUTATED CREB5 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREB5 MUTATED        0      0      1
  CREB5 WILD-TYPE      7      9      3
D245V2, multiclass
[1] "Remove cluster labels:" "CREB5 MUTATED"         
clus
  CREB5 MUTATED CREB5 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"CREB5 WILD-TYPE" "CREB5 WILD-TYPE" "CREB5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREB5 MUTATED        1      4      2      6
  CREB5 WILD-TYPE     64    206     70    125
D245V3, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             4             206
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREB5 MUTATED        4      2      5
  CREB5 WILD-TYPE    127    136    156
D245V4, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             2             136
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREB5 MUTATED        0      1      3
  CREB5 WILD-TYPE     42     70     60
D245V5, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             3              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
  CREB5 MUTATED        0      1      2      1      0
  CREB5 WILD-TYPE     39     31     41     29     32
D245V6, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREB5 MUTATED        3      8      2
  CREB5 WILD-TYPE    147    177    141
D245V7, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             8             177
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CREB5 MUTATED        2      2      3      1      0      1      4
  CREB5 WILD-TYPE     70    107     87     43     49     45     64
D245V8, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             2             107
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             4              64
[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
  CREB5 MUTATED        4      8      1
  CREB5 WILD-TYPE    171    203     89
D245V9, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             8             203
  CLUS_3             1              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
  CREB5 MUTATED        1      5      4      3
  CREB5 WILD-TYPE     69    181    127     86
D245V10, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             4             127
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CREB5 MUTATED        3      5      3
  CREB5 WILD-TYPE    138    177     86
D245V11, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             3              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
  CREB5 MUTATED        1      7      3
  CREB5 WILD-TYPE     93    226     82
D245V12, multiclass
        clus
vv       CREB5 MUTATED CREB5 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             7             226
  CLUS_3             3              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"

Clustering(246) Variable = CD300E MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD300E MUTATED        0      0      0      0
  CD300E WILD-TYPE      5      7      5      3
D246V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD300E MUTATED        0      0      0
  CD300E WILD-TYPE      7      9      4
D246V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CD300E MUTATED        0      2      3      2
  CD300E WILD-TYPE     65    208     69    129
D246V3, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              0               65
  CLUS_2              2              208
  CLUS_3              3               69
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD300E MUTATED        0      2      5
  CD300E WILD-TYPE    131    136    156
D246V4, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              0              131
  CLUS_2              2              136
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD300E MUTATED        1      0      0
  CD300E WILD-TYPE     41     71     63
D246V5, multiclass
[1] "Remove cluster labels:" "CD300E MUTATED"        
clus
  CD300E MUTATED CD300E WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7540       TCGA-78-7542 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CD300E MUTATED        0      0      0      0      1
  CD300E WILD-TYPE     39     32     43     30     31
D246V6, multiclass
[1] "Remove cluster labels:" "CD300E MUTATED"        
clus
  CD300E MUTATED CD300E WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7540       TCGA-78-7542 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7947       TCGA-95-7948       TCGA-97-7546 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"CD300E WILD-TYPE" "CD300E WILD-TYPE" "CD300E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD300E MUTATED        1      4      2
  CD300E WILD-TYPE    149    181    141
D246V7, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              1              149
  CLUS_2              4              181
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CD300E MUTATED        1      2      2      0      0      0      2
  CD300E WILD-TYPE     71    107     88     44     49     46     66
D246V8, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              1               71
  CLUS_2              2              107
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              2               66
[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
  CD300E MUTATED        0      5      2
  CD300E WILD-TYPE    175    206     88
D246V9, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              0              175
  CLUS_2              5              206
  CLUS_3              2               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
  CD300E MUTATED        0      5      1      1
  CD300E WILD-TYPE     70    181    130     88
D246V10, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              181
  CLUS_3              1              130
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CD300E MUTATED        3      3      1
  CD300E WILD-TYPE    138    179     88
D246V11, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              3              138
  CLUS_2              3              179
  CLUS_3              1               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
  CD300E MUTATED        1      5      1
  CD300E WILD-TYPE     93    228     84
D246V12, multiclass
        clus
vv       CD300E MUTATED CD300E WILD-TYPE
  CLUS_1              1               93
  CLUS_2              5              228
  CLUS_3              1               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"

Clustering(247) Variable = ZNF623 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF623 MUTATED        0      0      0      1
  ZNF623 WILD-TYPE      5      7      5      2
D247V1, multiclass
[1] "Remove cluster labels:" "ZNF623 MUTATED"        
clus
  ZNF623 MUTATED ZNF623 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF623 MUTATED        0      0      1
  ZNF623 WILD-TYPE      7      9      3
D247V2, multiclass
[1] "Remove cluster labels:" "ZNF623 MUTATED"        
clus
  ZNF623 MUTATED ZNF623 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" "ZNF623 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF623 MUTATED        2      3      1      3
  ZNF623 WILD-TYPE     63    207     71    128
D247V3, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              3              207
  CLUS_3              1               71
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF623 MUTATED        1      3      2
  ZNF623 WILD-TYPE    130    135    159
D247V4, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              3              135
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF623 MUTATED        0      4      1
  ZNF623 WILD-TYPE     42     67     62
D247V5, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4               67
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF623 MUTATED        1      2      2      0      0
  ZNF623 WILD-TYPE     38     30     41     30     32
D247V6, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              2               30
  CLUS_3              2               41
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF623 MUTATED        0      5      4
  ZNF623 WILD-TYPE    150    180    139
D247V7, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              5              180
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF623 MUTATED        0      2      3      1      2      1      0
  ZNF623 WILD-TYPE     72    107     87     43     47     45     68
D247V8, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              3               87
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              1               45
  CLUS_7              0               68
[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
  ZNF623 MUTATED        1      7      1
  ZNF623 WILD-TYPE    174    204     89
D247V9, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              7              204
  CLUS_3              1               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
  ZNF623 MUTATED        0      5      2      2
  ZNF623 WILD-TYPE     70    181    129     87
D247V10, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              181
  CLUS_3              2              129
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF623 MUTATED        4      2      0
  ZNF623 WILD-TYPE    137    180     89
D247V11, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              2              180
  CLUS_3              0               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
  ZNF623 MUTATED        1      4      1
  ZNF623 WILD-TYPE     93    229     84
D247V12, multiclass
        clus
vv       ZNF623 MUTATED ZNF623 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              4              229
  CLUS_3              1               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"

Clustering(248) Variable = CYSLTR2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYSLTR2 MUTATED        0      0      0      0
  CYSLTR2 WILD-TYPE      5      7      5      3
D248V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        0      0      0
  CYSLTR2 WILD-TYPE      7      9      4
D248V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CYSLTR2 MUTATED        0      4      1      4
  CYSLTR2 WILD-TYPE     65    206     71    127
D248V3, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               4               206
  CLUS_3               1                71
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        2      4      2
  CYSLTR2 WILD-TYPE    129    134    159
D248V4, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               4               134
  CLUS_3               2               159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        0      1      0
  CYSLTR2 WILD-TYPE     42     70     63
D248V5, multiclass
[1] "Remove cluster labels:" "CYSLTR2 MUTATED"       
clus
  CYSLTR2 MUTATED CYSLTR2 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7043 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CYSLTR2 MUTATED        0      0      1      0      0
  CYSLTR2 WILD-TYPE     39     32     42     30     32
D248V6, multiclass
[1] "Remove cluster labels:" "CYSLTR2 MUTATED"       
clus
  CYSLTR2 MUTATED CYSLTR2 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7043 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" "CYSLTR2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        2      4      2
  CYSLTR2 WILD-TYPE    148    181    141
D248V7, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               4               181
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CYSLTR2 MUTATED        0      1      4      1      0      1      1
  CYSLTR2 WILD-TYPE     72    108     86     43     49     45     67
D248V8, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               1               108
  CLUS_3               4                86
  CLUS_4               1                43
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               1                67
[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
  CYSLTR2 MUTATED        1      5      2
  CYSLTR2 WILD-TYPE    174    206     88
D248V9, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               5               206
  CLUS_3               2                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
  CYSLTR2 MUTATED        1      2      0      5
  CYSLTR2 WILD-TYPE     69    184    131     84
D248V10, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               184
  CLUS_3               0               131
  CLUS_4               5                84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CYSLTR2 MUTATED        0      4      4
  CYSLTR2 WILD-TYPE    141    178     85
D248V11, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0               141
  CLUS_2               4               178
  CLUS_3               4                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
  CYSLTR2 MUTATED        0      6      2
  CYSLTR2 WILD-TYPE     94    227     83
D248V12, multiclass
        clus
vv       CYSLTR2 MUTATED CYSLTR2 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               6               227
  CLUS_3               2                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"

Clustering(249) Variable = BCL9L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCL9L MUTATED        0      1      0      0
  BCL9L WILD-TYPE      5      6      5      3
D249V1, multiclass
[1] "Remove cluster labels:" "BCL9L MUTATED"         
clus
  BCL9L MUTATED BCL9L WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4123 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        0      1      0
  BCL9L WILD-TYPE      7      8      4
D249V2, multiclass
[1] "Remove cluster labels:" "BCL9L MUTATED"         
clus
  BCL9L MUTATED BCL9L WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4123 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"BCL9L WILD-TYPE" "BCL9L WILD-TYPE" "BCL9L WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCL9L MUTATED        2      7      2      6
  BCL9L WILD-TYPE     63    203     70    125
D249V3, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             2              63
  CLUS_2             7             203
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        5      8      2
  BCL9L WILD-TYPE    126    130    159
D249V4, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             5             126
  CLUS_2             8             130
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        0      4      4
  BCL9L WILD-TYPE     42     67     59
D249V5, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4              67
  CLUS_3             4              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 CLUS_4 CLUS_5
  BCL9L MUTATED        1      1      3      3      0
  BCL9L WILD-TYPE     38     31     40     27     32
D249V6, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             3              40
  CLUS_4             3              27
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        2      9      6
  BCL9L WILD-TYPE    148    176    137
D249V7, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             2             148
  CLUS_2             9             176
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BCL9L MUTATED        0      4      6      1      3      2      1
  BCL9L WILD-TYPE     72    105     84     43     46     44     67
D249V8, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             6              84
  CLUS_4             1              43
  CLUS_5             3              46
  CLUS_6             2              44
  CLUS_7             1              67
[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
  BCL9L MUTATED        6      6      5
  BCL9L WILD-TYPE    169    205     85
D249V9, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             6             169
  CLUS_2             6             205
  CLUS_3             5              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
  BCL9L MUTATED        3      6      3      5
  BCL9L WILD-TYPE     67    180    128     84
D249V10, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             3              67
  CLUS_2             6             180
  CLUS_3             3             128
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BCL9L MUTATED        5      5      5
  BCL9L WILD-TYPE    136    177     84
D249V11, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             5             136
  CLUS_2             5             177
  CLUS_3             5              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
  BCL9L MUTATED        2      8      5
  BCL9L WILD-TYPE     92    225     80
D249V12, multiclass
        clus
vv       BCL9L MUTATED BCL9L WILD-TYPE
  CLUS_1             2              92
  CLUS_2             8             225
  CLUS_3             5              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"

Clustering(250) Variable = ZFP36L1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP36L1 MUTATED        0      1      0      0
  ZFP36L1 WILD-TYPE      5      6      5      3
D250V1, multiclass
[1] "Remove cluster labels:" "ZFP36L1 MUTATED"       
clus
  ZFP36L1 MUTATED ZFP36L1 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4250        TCGA-35-4122        TCGA-35-4123 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L1 MUTATED        0      1      0
  ZFP36L1 WILD-TYPE      7      8      4
D250V2, multiclass
[1] "Remove cluster labels:" "ZFP36L1 MUTATED"       
clus
  ZFP36L1 MUTATED ZFP36L1 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4250        TCGA-35-4122        TCGA-35-4123 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" "ZFP36L1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP36L1 MUTATED        3      5      1      2
  ZFP36L1 WILD-TYPE     62    205     71    129
D250V3, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               3                62
  CLUS_2               5               205
  CLUS_3               1                71
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L1 MUTATED        4      1      5
  ZFP36L1 WILD-TYPE    127    137    156
D250V4, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               4               127
  CLUS_2               1               137
  CLUS_3               5               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L1 MUTATED        3      1      1
  ZFP36L1 WILD-TYPE     39     70     62
D250V5, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               1                70
  CLUS_3               1                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFP36L1 MUTATED        1      2      1      1      0
  ZFP36L1 WILD-TYPE     38     30     42     29     32
D250V6, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               2                30
  CLUS_3               1                42
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L1 MUTATED        4      5      2
  ZFP36L1 WILD-TYPE    146    180    141
D250V7, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               4               146
  CLUS_2               5               180
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZFP36L1 MUTATED        3      2      1      2      1      1      1
  ZFP36L1 WILD-TYPE     69    107     89     42     48     45     67
D250V8, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               3                69
  CLUS_2               2               107
  CLUS_3               1                89
  CLUS_4               2                42
  CLUS_5               1                48
  CLUS_6               1                45
  CLUS_7               1                67
[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
  ZFP36L1 MUTATED        5      4      2
  ZFP36L1 WILD-TYPE    170    207     88
D250V9, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               5               170
  CLUS_2               4               207
  CLUS_3               2                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
  ZFP36L1 MUTATED        1      5      4      1
  ZFP36L1 WILD-TYPE     69    181    127     88
D250V10, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               181
  CLUS_3               4               127
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZFP36L1 MUTATED        6      3      1
  ZFP36L1 WILD-TYPE    135    179     88
D250V11, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               6               135
  CLUS_2               3               179
  CLUS_3               1                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
  ZFP36L1 MUTATED        3      4      3
  ZFP36L1 WILD-TYPE     91    229     82
D250V12, multiclass
        clus
vv       ZFP36L1 MUTATED ZFP36L1 WILD-TYPE
  CLUS_1               3                91
  CLUS_2               4               229
  CLUS_3               3                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"

Clustering(251) Variable = PALM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PALM MUTATED        0      0      0      0
  PALM WILD-TYPE      5      7      5      3
D251V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PALM MUTATED        0      0      0
  PALM WILD-TYPE      7      9      4
D251V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PALM MUTATED        1      1      1      3
  PALM WILD-TYPE     64    209     71    128
D251V3, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            1             64
  CLUS_2            1            209
  CLUS_3            1             71
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PALM MUTATED        0      2      3
  PALM WILD-TYPE    131    136    158
D251V4, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            0            131
  CLUS_2            2            136
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PALM MUTATED        0      1      1
  PALM WILD-TYPE     42     70     62
D251V5, multiclass
[1] "Remove cluster labels:" "PALM MUTATED"          
clus
  PALM MUTATED PALM WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4507 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7043     TCGA-95-7567 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"PALM WILD-TYPE" "PALM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PALM MUTATED        0      0      1      1      0
  PALM WILD-TYPE     39     32     42     29     32
D251V6, multiclass
[1] "Remove cluster labels:" "PALM MUTATED"          
clus
  PALM MUTATED PALM WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4507 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7043     TCGA-95-7567 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" "PALM WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"PALM WILD-TYPE" "PALM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PALM MUTATED        0      4      2
  PALM WILD-TYPE    150    181    141
D251V7, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            0            150
  CLUS_2            4            181
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PALM MUTATED        0      4      0      0      1      1      0
  PALM WILD-TYPE     72    105     90     44     48     45     68
D251V8, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            0             72
  CLUS_2            4            105
  CLUS_3            0             90
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  PALM MUTATED        1      5      0
  PALM WILD-TYPE    174    206     90
D251V9, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            1            174
  CLUS_2            5            206
  CLUS_3            0             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
  PALM MUTATED        0      5      0      1
  PALM WILD-TYPE     70    181    131     88
D251V10, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            181
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PALM MUTATED        0      4      1
  PALM WILD-TYPE    141    178     88
D251V11, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            0            141
  CLUS_2            4            178
  CLUS_3            1             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
  PALM MUTATED        0      5      0
  PALM WILD-TYPE     94    228     85
D251V12, multiclass
        clus
vv       PALM MUTATED PALM WILD-TYPE
  CLUS_1            0             94
  CLUS_2            5            228
  CLUS_3            0             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"

Clustering(252) Variable = CSNK1A1L MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSNK1A1L MUTATED        0      0      0      0
  CSNK1A1L WILD-TYPE      5      7      5      3
D252V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CSNK1A1L MUTATED        0      0      0
  CSNK1A1L WILD-TYPE      7      9      4
D252V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSNK1A1L MUTATED        2      3      2      6
  CSNK1A1L WILD-TYPE     63    207     70    125
D252V3, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                3                207
  CLUS_3                2                 70
  CLUS_4                6                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CSNK1A1L MUTATED        2      6      4
  CSNK1A1L WILD-TYPE    129    132    157
D252V4, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                2                129
  CLUS_2                6                132
  CLUS_3                4                157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CSNK1A1L MUTATED        1      1      1
  CSNK1A1L WILD-TYPE     41     70     62
D252V5, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                 70
  CLUS_3                1                 62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK1A1L MUTATED        0      1      2      0      0
  CSNK1A1L WILD-TYPE     39     31     41     30     32
D252V6, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                1                 31
  CLUS_3                2                 41
  CLUS_4                0                 30
  CLUS_5                0                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CSNK1A1L MUTATED        3      5      5
  CSNK1A1L WILD-TYPE    147    180    138
D252V7, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                3                147
  CLUS_2                5                180
  CLUS_3                5                138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CSNK1A1L MUTATED        1      4      2      1      1      2      2
  CSNK1A1L WILD-TYPE     71    105     88     43     48     44     66
D252V8, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                1                 71
  CLUS_2                4                105
  CLUS_3                2                 88
  CLUS_4                1                 43
  CLUS_5                1                 48
  CLUS_6                2                 44
  CLUS_7                2                 66
[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
  CSNK1A1L MUTATED        3      8      1
  CSNK1A1L WILD-TYPE    172    203     89
D252V9, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                3                172
  CLUS_2                8                203
  CLUS_3                1                 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
  CSNK1A1L MUTATED        1      7      2      2
  CSNK1A1L WILD-TYPE     69    179    129     87
D252V10, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                7                179
  CLUS_3                2                129
  CLUS_4                2                 87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CSNK1A1L MUTATED        4      5      3
  CSNK1A1L WILD-TYPE    137    177     86
D252V11, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                4                137
  CLUS_2                5                177
  CLUS_3                3                 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
  CSNK1A1L MUTATED        1     10      1
  CSNK1A1L WILD-TYPE     93    223     84
D252V12, multiclass
        clus
vv       CSNK1A1L MUTATED CSNK1A1L WILD-TYPE
  CLUS_1                1                 93
  CLUS_2               10                223
  CLUS_3                1                 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"

Clustering(253) Variable = SCML4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCML4 MUTATED        0      0      0      0
  SCML4 WILD-TYPE      5      7      5      3
D253V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCML4 MUTATED        0      0      0
  SCML4 WILD-TYPE      7      9      4
D253V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SCML4 MUTATED        1      2      2      6
  SCML4 WILD-TYPE     64    208     70    125
D253V3, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             6             125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCML4 MUTATED        2      4      4
  SCML4 WILD-TYPE    129    134    157
D253V4, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             4             134
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCML4 MUTATED        1      2      1
  SCML4 WILD-TYPE     41     69     62
D253V5, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SCML4 MUTATED        1      0      2      0      1
  SCML4 WILD-TYPE     38     32     41     30     31
D253V6, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCML4 MUTATED        3      5      3
  SCML4 WILD-TYPE    147    180    140
D253V7, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             5             180
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SCML4 MUTATED        1      5      3      1      0      0      1
  SCML4 WILD-TYPE     71    104     87     43     49     46     67
D253V8, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             5             104
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             1              67
[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
  SCML4 MUTATED        4      5      2
  SCML4 WILD-TYPE    171    206     88
D253V9, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             5             206
  CLUS_3             2              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
  SCML4 MUTATED        0      5      3      3
  SCML4 WILD-TYPE     70    181    128     86
D253V10, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             181
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SCML4 MUTATED        4      3      3
  SCML4 WILD-TYPE    137    179     86
D253V11, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             3             179
  CLUS_3             3              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
  SCML4 MUTATED        1      7      2
  SCML4 WILD-TYPE     93    226     83
D253V12, multiclass
        clus
vv       SCML4 MUTATED SCML4 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             7             226
  CLUS_3             2              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"

Clustering(254) Variable = SLC11A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC11A1 MUTATED        0      0      0      0
  SLC11A1 WILD-TYPE      5      7      5      3
D254V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A1 MUTATED        0      0      0
  SLC11A1 WILD-TYPE      7      9      4
D254V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC11A1 MUTATED        0      2      2      3
  SLC11A1 WILD-TYPE     65    208     70    128
D254V3, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               2               208
  CLUS_3               2                70
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A1 MUTATED        2      4      1
  SLC11A1 WILD-TYPE    129    134    160
D254V4, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               4               134
  CLUS_3               1               160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A1 MUTATED        1      1      3
  SLC11A1 WILD-TYPE     41     70     60
D254V5, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1                70
  CLUS_3               3                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
  SLC11A1 MUTATED        1      1      1      1      1
  SLC11A1 WILD-TYPE     38     31     42     29     31
D254V6, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               1                31
  CLUS_3               1                42
  CLUS_4               1                29
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A1 MUTATED        1      3      3
  SLC11A1 WILD-TYPE    149    182    140
D254V7, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               3               182
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC11A1 MUTATED        0      1      3      1      0      1      1
  SLC11A1 WILD-TYPE     72    108     87     43     49     45     67
D254V8, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               1               108
  CLUS_3               3                87
  CLUS_4               1                43
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               1                67
[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
  SLC11A1 MUTATED        2      5      0
  SLC11A1 WILD-TYPE    173    206     90
D254V9, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               2               173
  CLUS_2               5               206
  CLUS_3               0                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
  SLC11A1 MUTATED        1      2      2      2
  SLC11A1 WILD-TYPE     69    184    129     87
D254V10, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               184
  CLUS_3               2               129
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC11A1 MUTATED        1      6      0
  SLC11A1 WILD-TYPE    140    176     89
D254V11, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               6               176
  CLUS_3               0                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
  SLC11A1 MUTATED        1      5      1
  SLC11A1 WILD-TYPE     93    228     84
D254V12, multiclass
        clus
vv       SLC11A1 MUTATED SLC11A1 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               5               228
  CLUS_3               1                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"

Clustering(255) Variable = MOGAT3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOGAT3 MUTATED        0      0      0      0
  MOGAT3 WILD-TYPE      5      7      5      3
D255V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        0      0      0
  MOGAT3 WILD-TYPE      7      9      4
D255V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MOGAT3 MUTATED        0      3      2      5
  MOGAT3 WILD-TYPE     65    207     70    126
D255V3, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0               65
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        3      1      5
  MOGAT3 WILD-TYPE    128    137    156
D255V4, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              1              137
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        0      4      0
  MOGAT3 WILD-TYPE     42     67     63
D255V5, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4               67
  CLUS_3              0               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 CLUS_4 CLUS_5
  MOGAT3 MUTATED        1      0      3      0      0
  MOGAT3 WILD-TYPE     38     32     40     30     32
D255V6, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              3               40
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        2      7      1
  MOGAT3 WILD-TYPE    148    178    142
D255V7, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              7              178
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MOGAT3 MUTATED        0      6      1      0      1      0      2
  MOGAT3 WILD-TYPE     72    103     89     44     48     46     66
D255V8, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              6              103
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              2               66
[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
  MOGAT3 MUTATED        2      8      0
  MOGAT3 WILD-TYPE    173    203     90
D255V9, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              8              203
  CLUS_3              0               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
  MOGAT3 MUTATED        0      4      2      4
  MOGAT3 WILD-TYPE     70    182    129     85
D255V10, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              182
  CLUS_3              2              129
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MOGAT3 MUTATED        2      5      2
  MOGAT3 WILD-TYPE    139    177     87
D255V11, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              5              177
  CLUS_3              2               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
  MOGAT3 MUTATED        1      7      1
  MOGAT3 WILD-TYPE     93    226     84
D255V12, multiclass
        clus
vv       MOGAT3 MUTATED MOGAT3 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              7              226
  CLUS_3              1               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"

Clustering(256) Variable = TULP4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TULP4 MUTATED        0      0      0      0
  TULP4 WILD-TYPE      5      7      5      3
D256V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TULP4 MUTATED        0      0      0
  TULP4 WILD-TYPE      7      9      4
D256V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TULP4 MUTATED        2      5      3      3
  TULP4 WILD-TYPE     63    205     69    128
D256V3, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             5             205
  CLUS_3             3              69
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TULP4 MUTATED        3      3      6
  TULP4 WILD-TYPE    128    135    155
D256V4, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TULP4 MUTATED        2      1      2
  TULP4 WILD-TYPE     40     70     61
D256V5, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             2              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
  TULP4 MUTATED        0      0      1      1      3
  TULP4 WILD-TYPE     39     32     42     29     29
D256V6, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             3              29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TULP4 MUTATED        3      5      5
  TULP4 WILD-TYPE    147    180    138
D256V7, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             5             180
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TULP4 MUTATED        3      2      2      0      3      2      1
  TULP4 WILD-TYPE     69    107     88     44     46     44     67
D256V8, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             2              44
  CLUS_7             1              67
[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
  TULP4 MUTATED        3      8      1
  TULP4 WILD-TYPE    172    203     89
D256V9, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             8             203
  CLUS_3             1              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
  TULP4 MUTATED        0      9      1      2
  TULP4 WILD-TYPE     70    177    130     87
D256V10, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             9             177
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TULP4 MUTATED        4      6      2
  TULP4 WILD-TYPE    137    176     87
D256V11, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             6             176
  CLUS_3             2              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
  TULP4 MUTATED        1      9      2
  TULP4 WILD-TYPE     93    224     83
D256V12, multiclass
        clus
vv       TULP4 MUTATED TULP4 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             9             224
  CLUS_3             2              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"

Clustering(257) Variable = ASB5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASB5 MUTATED        0      0      0      0
  ASB5 WILD-TYPE      5      7      5      3
D257V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASB5 MUTATED        0      0      0
  ASB5 WILD-TYPE      7      9      4
D257V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASB5 MUTATED        2      3      4      5
  ASB5 WILD-TYPE     63    207     68    126
D257V3, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3            207
  CLUS_3            4             68
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASB5 MUTATED        2      6      5
  ASB5 WILD-TYPE    129    132    156
D257V4, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            6            132
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASB5 MUTATED        2      1      2
  ASB5 WILD-TYPE     40     70     61
D257V5, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1             70
  CLUS_3            2             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
  ASB5 MUTATED        0      1      1      2      1
  ASB5 WILD-TYPE     39     31     42     28     31
D257V6, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            1             42
  CLUS_4            2             28
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASB5 MUTATED        2      8      4
  ASB5 WILD-TYPE    148    177    139
D257V7, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            2            148
  CLUS_2            8            177
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ASB5 MUTATED        3      2      5      1      2      1      0
  ASB5 WILD-TYPE     69    107     85     43     47     45     68
D257V8, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            3             69
  CLUS_2            2            107
  CLUS_3            5             85
  CLUS_4            1             43
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            0             68
[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
  ASB5 MUTATED        2      9      3
  ASB5 WILD-TYPE    173    202     87
D257V9, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            9            202
  CLUS_3            3             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
  ASB5 MUTATED        1      6      3      4
  ASB5 WILD-TYPE     69    180    128     85
D257V10, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            180
  CLUS_3            3            128
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ASB5 MUTATED        4      4      4
  ASB5 WILD-TYPE    137    178     85
D257V11, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            4            178
  CLUS_3            4             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
  ASB5 MUTATED        3      8      1
  ASB5 WILD-TYPE     91    225     84
D257V12, multiclass
        clus
vv       ASB5 MUTATED ASB5 WILD-TYPE
  CLUS_1            3             91
  CLUS_2            8            225
  CLUS_3            1             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"

Clustering(258) Variable = TDRD6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDRD6 MUTATED        0      1      0      0
  TDRD6 WILD-TYPE      5      6      5      3
D258V1, multiclass
[1] "Remove cluster labels:" "TDRD6 MUTATED"         
clus
  TDRD6 MUTATED TDRD6 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4123 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD6 MUTATED        0      1      0
  TDRD6 WILD-TYPE      7      8      4
D258V2, multiclass
[1] "Remove cluster labels:" "TDRD6 MUTATED"         
clus
  TDRD6 MUTATED TDRD6 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4123 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" "TDRD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDRD6 MUTATED        1      9      3      4
  TDRD6 WILD-TYPE     64    201     69    127
D258V3, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             9             201
  CLUS_3             3              69
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD6 MUTATED        3      4      8
  TDRD6 WILD-TYPE    128    134    153
D258V4, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             4             134
  CLUS_3             8             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD6 MUTATED        2      1      1
  TDRD6 WILD-TYPE     40     70     62
D258V5, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TDRD6 MUTATED        2      0      0      0      2
  TDRD6 WILD-TYPE     37     32     43     30     30
D258V6, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD6 MUTATED        7      7      3
  TDRD6 WILD-TYPE    143    178    140
D258V7, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             7             143
  CLUS_2             7             178
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TDRD6 MUTATED        2      5      4      1      3      0      2
  TDRD6 WILD-TYPE     70    104     86     43     46     46     66
D258V8, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             5             104
  CLUS_3             4              86
  CLUS_4             1              43
  CLUS_5             3              46
  CLUS_6             0              46
  CLUS_7             2              66
[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
  TDRD6 MUTATED        6      9      2
  TDRD6 WILD-TYPE    169    202     88
D258V9, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             6             169
  CLUS_2             9             202
  CLUS_3             2              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
  TDRD6 MUTATED        1      5      5      6
  TDRD6 WILD-TYPE     69    181    126     83
D258V10, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             5             126
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TDRD6 MUTATED        4      8      2
  TDRD6 WILD-TYPE    137    174     87
D258V11, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             8             174
  CLUS_3             2              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
  TDRD6 MUTATED        3      8      3
  TDRD6 WILD-TYPE     91    225     82
D258V12, multiclass
        clus
vv       TDRD6 MUTATED TDRD6 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             8             225
  CLUS_3             3              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"

Clustering(259) Variable = COL12A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL12A1 MUTATED        0      2      1      0
  COL12A1 WILD-TYPE      5      5      4      3
D259V1, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               0                 5
  CLUS_2               2                 5
  CLUS_3               1                 4
  CLUS_4               0                 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
  COL12A1 MUTATED        1      2      0
  COL12A1 WILD-TYPE      6      7      4
D259V2, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               2                 7
  CLUS_3               0                 4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL12A1 MUTATED        7     13     12     22
  COL12A1 WILD-TYPE     58    197     60    109
D259V3, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               7                58
  CLUS_2              13               197
  CLUS_3              12                60
  CLUS_4              22               109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL12A1 MUTATED        6     23     19
  COL12A1 WILD-TYPE    125    115    142
D259V4, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               6               125
  CLUS_2              23               115
  CLUS_3              19               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL12A1 MUTATED        4      4      9
  COL12A1 WILD-TYPE     38     67     54
D259V5, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               4                38
  CLUS_2               4                67
  CLUS_3               9                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 CLUS_5
  COL12A1 MUTATED        3      0      6      5      3
  COL12A1 WILD-TYPE     36     32     37     25     29
D259V6, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               3                36
  CLUS_2               0                32
  CLUS_3               6                37
  CLUS_4               5                25
  CLUS_5               3                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL12A1 MUTATED       10     25     18
  COL12A1 WILD-TYPE    140    160    125
D259V7, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1              10               140
  CLUS_2              25               160
  CLUS_3              18               125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL12A1 MUTATED        6     13     17      3      5      7      2
  COL12A1 WILD-TYPE     66     96     73     41     44     39     66
D259V8, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               6                66
  CLUS_2              13                96
  CLUS_3              17                73
  CLUS_4               3                41
  CLUS_5               5                44
  CLUS_6               7                39
  CLUS_7               2                66
[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
  COL12A1 MUTATED       10     32     11
  COL12A1 WILD-TYPE    165    179     79
D259V9, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1              10               165
  CLUS_2              32               179
  CLUS_3              11                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
  COL12A1 MUTATED        4     25      5     19
  COL12A1 WILD-TYPE     66    161    126     70
D259V10, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               4                66
  CLUS_2              25               161
  CLUS_3               5               126
  CLUS_4              19                70
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL12A1 MUTATED       15     19     13
  COL12A1 WILD-TYPE    126    163     76
D259V11, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1              15               126
  CLUS_2              19               163
  CLUS_3              13                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
  COL12A1 MUTATED        4     35      8
  COL12A1 WILD-TYPE     90    198     77
D259V12, multiclass
        clus
vv       COL12A1 MUTATED COL12A1 WILD-TYPE
  CLUS_1               4                90
  CLUS_2              35               198
  CLUS_3               8                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"

Clustering(260) Variable = SMOC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMOC1 MUTATED        0      1      0      0
  SMOC1 WILD-TYPE      5      6      5      3
D260V1, multiclass
[1] "Remove cluster labels:" "SMOC1 MUTATED"         
clus
  SMOC1 MUTATED SMOC1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMOC1 MUTATED        1      0      0
  SMOC1 WILD-TYPE      6      9      4
D260V2, multiclass
[1] "Remove cluster labels:" "SMOC1 MUTATED"         
clus
  SMOC1 MUTATED SMOC1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" "SMOC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMOC1 MUTATED        0      7      0      5
  SMOC1 WILD-TYPE     65    203     72    126
D260V3, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             7             203
  CLUS_3             0              72
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMOC1 MUTATED        4      2      6
  SMOC1 WILD-TYPE    127    136    155
D260V4, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             2             136
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMOC1 MUTATED        2      3      0
  SMOC1 WILD-TYPE     40     68     63
D260V5, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3              68
  CLUS_3             0              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 CLUS_4 CLUS_5
  SMOC1 MUTATED        2      1      1      0      1
  SMOC1 WILD-TYPE     37     31     42     30     31
D260V6, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMOC1 MUTATED        2      8      2
  SMOC1 WILD-TYPE    148    177    141
D260V7, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             8             177
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SMOC1 MUTATED        2      6      1      1      0      1      1
  SMOC1 WILD-TYPE     70    103     89     43     49     45     67
D260V8, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             6             103
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  SMOC1 MUTATED        5      6      1
  SMOC1 WILD-TYPE    170    205     89
D260V9, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             5             170
  CLUS_2             6             205
  CLUS_3             1              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
  SMOC1 MUTATED        5      5      1      1
  SMOC1 WILD-TYPE     65    181    130     88
D260V10, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             5              65
  CLUS_2             5             181
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMOC1 MUTATED        4      5      2
  SMOC1 WILD-TYPE    137    177     87
D260V11, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             5             177
  CLUS_3             2              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
  SMOC1 MUTATED        2      7      2
  SMOC1 WILD-TYPE     92    226     83
D260V12, multiclass
        clus
vv       SMOC1 MUTATED SMOC1 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             7             226
  CLUS_3             2              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"

Clustering(261) Variable = HSD11B1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSD11B1 MUTATED        0      1      1      0
  HSD11B1 WILD-TYPE      5      6      4      3
D261V1, multiclass
[1] "Remove cluster labels:" "HSD11B1 MUTATED"       
clus
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3919        TCGA-44-4112 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSD11B1 MUTATED        1      1      0
  HSD11B1 WILD-TYPE      6      8      4
D261V2, multiclass
[1] "Remove cluster labels:" "HSD11B1 MUTATED"       
clus
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                2                18 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3919        TCGA-44-4112 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSD11B1 MUTATED        0      3      0      4
  HSD11B1 WILD-TYPE     65    207     72    127
D261V3, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               3               207
  CLUS_3               0                72
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSD11B1 MUTATED        0      2      4
  HSD11B1 WILD-TYPE    131    136    157
D261V4, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               2               136
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSD11B1 MUTATED        0      0      1
  HSD11B1 WILD-TYPE     42     71     62
D261V5, multiclass
[1] "Remove cluster labels:" "HSD11B1 MUTATED"       
clus
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSD11B1 MUTATED        0      0      1      0      0
  HSD11B1 WILD-TYPE     39     32     42     30     32
D261V6, multiclass
[1] "Remove cluster labels:" "HSD11B1 MUTATED"       
clus
  HSD11B1 MUTATED HSD11B1 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" "HSD11B1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSD11B1 MUTATED        2      4      1
  HSD11B1 WILD-TYPE    148    181    142
D261V7, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               4               181
  CLUS_3               1               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HSD11B1 MUTATED        2      2      3      0      0      0      0
  HSD11B1 WILD-TYPE     70    107     87     44     49     46     68
D261V8, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               2                70
  CLUS_2               2               107
  CLUS_3               3                87
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               0                46
  CLUS_7               0                68
[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
  HSD11B1 MUTATED        1      6      0
  HSD11B1 WILD-TYPE    174    205     90
D261V9, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               6               205
  CLUS_3               0                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
  HSD11B1 MUTATED        1      5      0      1
  HSD11B1 WILD-TYPE     69    181    131     88
D261V10, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               181
  CLUS_3               0               131
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HSD11B1 MUTATED        0      4      0
  HSD11B1 WILD-TYPE    141    178     89
D261V11, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               0               141
  CLUS_2               4               178
  CLUS_3               0                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
  HSD11B1 MUTATED        0      4      0
  HSD11B1 WILD-TYPE     94    229     85
D261V12, multiclass
        clus
vv       HSD11B1 MUTATED HSD11B1 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               4               229
  CLUS_3               0                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"

Clustering(262) Variable = COL7A1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL7A1 MUTATED        0      0      0      0
  COL7A1 WILD-TYPE      5      7      5      3
D262V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL7A1 MUTATED        0      0      0
  COL7A1 WILD-TYPE      7      9      4
D262V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL7A1 MUTATED        4     12      4     13
  COL7A1 WILD-TYPE     61    198     68    118
D262V3, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              4               61
  CLUS_2             12              198
  CLUS_3              4               68
  CLUS_4             13              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL7A1 MUTATED        7      9     13
  COL7A1 WILD-TYPE    124    129    148
D262V4, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              7              124
  CLUS_2              9              129
  CLUS_3             13              148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL7A1 MUTATED        4      7      2
  COL7A1 WILD-TYPE     38     64     61
D262V5, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              7               64
  CLUS_3              2               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
  COL7A1 MUTATED        3      1      4      1      4
  COL7A1 WILD-TYPE     36     31     39     29     28
D262V6, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              3               36
  CLUS_2              1               31
  CLUS_3              4               39
  CLUS_4              1               29
  CLUS_5              4               28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL7A1 MUTATED        8     15     10
  COL7A1 WILD-TYPE    142    170    133
D262V7, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              8              142
  CLUS_2             15              170
  CLUS_3             10              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL7A1 MUTATED        6     10      3      2      3      4      5
  COL7A1 WILD-TYPE     66     99     87     42     46     42     63
D262V8, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              6               66
  CLUS_2             10               99
  CLUS_3              3               87
  CLUS_4              2               42
  CLUS_5              3               46
  CLUS_6              4               42
  CLUS_7              5               63
[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
  COL7A1 MUTATED       13     19      0
  COL7A1 WILD-TYPE    162    192     90
D262V9, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1             13              162
  CLUS_2             19              192
  CLUS_3              0               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
  COL7A1 MUTATED        6     12      7      7
  COL7A1 WILD-TYPE     64    174    124     82
D262V10, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              6               64
  CLUS_2             12              174
  CLUS_3              7              124
  CLUS_4              7               82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL7A1 MUTATED        8     18      2
  COL7A1 WILD-TYPE    133    164     87
D262V11, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              8              133
  CLUS_2             18              164
  CLUS_3              2               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
  COL7A1 MUTATED        4     19      5
  COL7A1 WILD-TYPE     90    214     80
D262V12, multiclass
        clus
vv       COL7A1 MUTATED COL7A1 WILD-TYPE
  CLUS_1              4               90
  CLUS_2             19              214
  CLUS_3              5               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"

Clustering(263) Variable = C1ORF105 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF105 MUTATED        0      0      0      0
  C1ORF105 WILD-TYPE      5      7      5      3
D263V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF105 MUTATED        0      0      0
  C1ORF105 WILD-TYPE      7      9      4
D263V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C1ORF105 MUTATED        1      1      0      2
  C1ORF105 WILD-TYPE     64    209     72    129
D263V3, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                1                 64
  CLUS_2                1                209
  CLUS_3                0                 72
  CLUS_4                2                129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF105 MUTATED        0      1      3
  C1ORF105 WILD-TYPE    131    137    158
D263V4, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                0                131
  CLUS_2                1                137
  CLUS_3                3                158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF105 MUTATED        0      0      1
  C1ORF105 WILD-TYPE     42     71     62
D263V5, multiclass
[1] "Remove cluster labels:" "C1ORF105 MUTATED"      
clus
  C1ORF105 MUTATED C1ORF105 WILD-TYPE 
                 1                175 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6744 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-6745         TCGA-49-6761         TCGA-49-6767 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5044         TCGA-50-5049         TCGA-50-5051 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5068         TCGA-50-5072         TCGA-50-5931 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5932         TCGA-50-5933         TCGA-50-5936 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5939         TCGA-50-5941         TCGA-50-5942 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5944         TCGA-50-6593         TCGA-50-6595 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-6597         TCGA-50-6673         TCGA-50-7109 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-53-7626         TCGA-53-7813         TCGA-55-1592 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-6543         TCGA-55-6712         TCGA-55-6970 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-6971         TCGA-55-6978         TCGA-55-6979 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-6981         TCGA-55-6982         TCGA-55-7573 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-7574         TCGA-55-7728         TCGA-55-7815 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-7911         TCGA-64-1676         TCGA-64-1677 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-64-1679         TCGA-64-1681         TCGA-64-5774 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-64-5778         TCGA-64-5781         TCGA-67-3771 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-67-6215         TCGA-67-6216         TCGA-67-6217 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-69-7760         TCGA-69-7761         TCGA-69-7763 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-69-7764         TCGA-69-7765         TCGA-71-6725 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-73-4658         TCGA-73-4659         TCGA-73-4675 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-73-4676         TCGA-73-7498         TCGA-73-7499 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-5122         TCGA-75-6203         TCGA-75-6205 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-6207         TCGA-75-6211         TCGA-75-6212 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-6214         TCGA-75-7027         TCGA-75-7030 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-7031         TCGA-78-7143         TCGA-78-7145 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7147         TCGA-78-7148         TCGA-78-7149 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7150         TCGA-78-7152         TCGA-78-7153 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7154         TCGA-78-7156         TCGA-78-7158 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7159         TCGA-78-7160         TCGA-78-7161 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7162         TCGA-78-7163         TCGA-78-7166 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7167         TCGA-78-7535         TCGA-78-7536 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7537         TCGA-78-7539         TCGA-78-7540 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7542         TCGA-78-7633         TCGA-80-5607 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-80-5608         TCGA-86-6562         TCGA-86-6851 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-86-7713         TCGA-91-6828         TCGA-91-6829 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-95-7947         TCGA-95-7948         TCGA-97-7546 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-97-7552         TCGA-97-7553         TCGA-97-7554 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-97-7937         TCGA-97-7938         TCGA-97-7941 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-99-7458 
"C1ORF105 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C1ORF105 MUTATED        0      0      1      0      0
  C1ORF105 WILD-TYPE     39     32     42     30     32
D263V6, multiclass
[1] "Remove cluster labels:" "C1ORF105 MUTATED"      
clus
  C1ORF105 MUTATED C1ORF105 WILD-TYPE 
                 1                175 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6744 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-49-6745         TCGA-49-6761         TCGA-49-6767 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5044         TCGA-50-5049         TCGA-50-5051 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5068         TCGA-50-5072         TCGA-50-5931 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5932         TCGA-50-5933         TCGA-50-5936 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5939         TCGA-50-5941         TCGA-50-5942 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-5944         TCGA-50-6593         TCGA-50-6595 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-50-6597         TCGA-50-6673         TCGA-50-7109 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-53-7626         TCGA-53-7813         TCGA-55-1592 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-6543         TCGA-55-6712         TCGA-55-6970 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-6971         TCGA-55-6978         TCGA-55-6979 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-6981         TCGA-55-6982         TCGA-55-7573 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-7574         TCGA-55-7728         TCGA-55-7815 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-55-7911         TCGA-64-1676         TCGA-64-1677 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-64-1679         TCGA-64-1681         TCGA-64-5774 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-64-5778         TCGA-64-5781         TCGA-67-3771 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-67-6215         TCGA-67-6216         TCGA-67-6217 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-69-7760         TCGA-69-7761         TCGA-69-7763 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-69-7764         TCGA-69-7765         TCGA-71-6725 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-73-4658         TCGA-73-4659         TCGA-73-4675 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-73-4676         TCGA-73-7498         TCGA-73-7499 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-5122         TCGA-75-6203         TCGA-75-6205 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-6207         TCGA-75-6211         TCGA-75-6212 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-6214         TCGA-75-7027         TCGA-75-7030 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-75-7031         TCGA-78-7143         TCGA-78-7145 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7147         TCGA-78-7148         TCGA-78-7149 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7150         TCGA-78-7152         TCGA-78-7153 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7154         TCGA-78-7156         TCGA-78-7158 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7159         TCGA-78-7160         TCGA-78-7161 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7162         TCGA-78-7163         TCGA-78-7166 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7167         TCGA-78-7535         TCGA-78-7536 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7537         TCGA-78-7539         TCGA-78-7540 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-78-7542         TCGA-78-7633         TCGA-80-5607 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-80-5608         TCGA-86-6562         TCGA-86-6851 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-86-7713         TCGA-91-6828         TCGA-91-6829 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-95-7947         TCGA-95-7948         TCGA-97-7546 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-97-7552         TCGA-97-7553         TCGA-97-7554 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-97-7937         TCGA-97-7938         TCGA-97-7941 
"C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" "C1ORF105 WILD-TYPE" 
        TCGA-99-7458 
"C1ORF105 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF105 MUTATED        0      4      0
  C1ORF105 WILD-TYPE    150    181    143
D263V7, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                0                150
  CLUS_2                4                181
  CLUS_3                0                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C1ORF105 MUTATED        0      2      2      0      0      0      0
  C1ORF105 WILD-TYPE     72    107     88     44     49     46     68
D263V8, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                0                 72
  CLUS_2                2                107
  CLUS_3                2                 88
  CLUS_4                0                 44
  CLUS_5                0                 49
  CLUS_6                0                 46
  CLUS_7                0                 68
[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
  C1ORF105 MUTATED        1      2      1
  C1ORF105 WILD-TYPE    174    209     89
D263V9, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                1                174
  CLUS_2                2                209
  CLUS_3                1                 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
  C1ORF105 MUTATED        1      2      0      1
  C1ORF105 WILD-TYPE     69    184    131     88
D263V10, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                2                184
  CLUS_3                0                131
  CLUS_4                1                 88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C1ORF105 MUTATED        0      3      1
  C1ORF105 WILD-TYPE    141    179     88
D263V11, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                0                141
  CLUS_2                3                179
  CLUS_3                1                 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
  C1ORF105 MUTATED        0      4      0
  C1ORF105 WILD-TYPE     94    229     85
D263V12, multiclass
        clus
vv       C1ORF105 MUTATED C1ORF105 WILD-TYPE
  CLUS_1                0                 94
  CLUS_2                4                229
  CLUS_3                0                 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"

Clustering(264) Variable = NDUFB11 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NDUFB11 MUTATED        0      0      0      0
  NDUFB11 WILD-TYPE      5      7      5      3
D264V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFB11 MUTATED        0      0      0
  NDUFB11 WILD-TYPE      7      9      4
D264V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NDUFB11 MUTATED        0      3      0      3
  NDUFB11 WILD-TYPE     65    207     72    128
D264V3, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               3               207
  CLUS_3               0                72
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFB11 MUTATED        1      1      4
  NDUFB11 WILD-TYPE    130    137    157
D264V4, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               1               137
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFB11 MUTATED        0      0      1
  NDUFB11 WILD-TYPE     42     71     62
D264V5, multiclass
[1] "Remove cluster labels:" "NDUFB11 MUTATED"       
clus
  NDUFB11 MUTATED NDUFB11 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7039 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-95-7043        TCGA-95-7567        TCGA-95-7947        TCGA-95-7948 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-97-7546        TCGA-97-7552        TCGA-97-7553        TCGA-97-7937 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NDUFB11 MUTATED        0      0      0      0      1
  NDUFB11 WILD-TYPE     39     32     43     30     31
D264V6, multiclass
[1] "Remove cluster labels:" "NDUFB11 MUTATED"       
clus
  NDUFB11 MUTATED NDUFB11 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7039 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-95-7043        TCGA-95-7567        TCGA-95-7947        TCGA-95-7948 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-97-7546        TCGA-97-7552        TCGA-97-7553        TCGA-97-7937 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" "NDUFB11 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFB11 MUTATED        1      5      0
  NDUFB11 WILD-TYPE    149    180    143
D264V7, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               5               180
  CLUS_3               0               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NDUFB11 MUTATED        0      3      2      0      0      0      1
  NDUFB11 WILD-TYPE     72    106     88     44     49     46     67
D264V8, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               0                46
  CLUS_7               1                67
[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
  NDUFB11 MUTATED        1      2      3
  NDUFB11 WILD-TYPE    174    209     87
D264V9, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               2               209
  CLUS_3               3                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
  NDUFB11 MUTATED        0      3      2      1
  NDUFB11 WILD-TYPE     70    183    129     88
D264V10, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               183
  CLUS_3               2               129
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NDUFB11 MUTATED        1      2      3
  NDUFB11 WILD-TYPE    140    180     86
D264V11, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               2               180
  CLUS_3               3                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
  NDUFB11 MUTATED        1      4      1
  NDUFB11 WILD-TYPE     93    229     84
D264V12, multiclass
        clus
vv       NDUFB11 MUTATED NDUFB11 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               4               229
  CLUS_3               1                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"

Clustering(265) Variable = CHM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHM MUTATED        1      0      0      0
  CHM WILD-TYPE      4      7      5      3
D265V1, multiclass
[1] "Remove cluster labels:" "CHM MUTATED"           
clus
  CHM MUTATED CHM WILD-TYPE 
            1            19 
   TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123    TCGA-44-2656 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        1      0      0
  CHM WILD-TYPE      6      9      4
D265V2, multiclass
[1] "Remove cluster labels:" "CHM MUTATED"           
clus
  CHM MUTATED CHM WILD-TYPE 
            1            19 
   TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123    TCGA-44-2656 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" "CHM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHM MUTATED        2      4      5      5
  CHM WILD-TYPE     63    206     67    126
D265V3, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           2            63
  CLUS_2           4           206
  CLUS_3           5            67
  CLUS_4           5           126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        4      9      1
  CHM WILD-TYPE    127    129    160
D265V4, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           4           127
  CLUS_2           9           129
  CLUS_3           1           160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        0      1      3
  CHM WILD-TYPE     42     70     60
D265V5, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1            70
  CLUS_3           3            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
  CHM MUTATED        1      0      1      2      0
  CHM WILD-TYPE     38     32     42     28     32
D265V6, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           1            38
  CLUS_2           0            32
  CLUS_3           1            42
  CLUS_4           2            28
  CLUS_5           0            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        3     11      2
  CHM WILD-TYPE    147    174    141
D265V7, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           3           147
  CLUS_2          11           174
  CLUS_3           2           141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CHM MUTATED        2      5      7      0      0      2      0
  CHM WILD-TYPE     70    104     83     44     49     44     68
D265V8, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           2            70
  CLUS_2           5           104
  CLUS_3           7            83
  CLUS_4           0            44
  CLUS_5           0            49
  CLUS_6           2            44
  CLUS_7           0            68
[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
  CHM MUTATED        2     11      2
  CHM WILD-TYPE    173    200     88
D265V9, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           2           173
  CLUS_2          11           200
  CLUS_3           2            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
  CHM MUTATED        0     10      1      4
  CHM WILD-TYPE     70    176    130     85
D265V10, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           0            70
  CLUS_2          10           176
  CLUS_3           1           130
  CLUS_4           4            85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  CHM MUTATED        2      8      3
  CHM WILD-TYPE    139    174     86
D265V11, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           2           139
  CLUS_2           8           174
  CLUS_3           3            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
  CHM MUTATED        0     12      1
  CHM WILD-TYPE     94    221     84
D265V12, multiclass
        clus
vv       CHM MUTATED CHM WILD-TYPE
  CLUS_1           0            94
  CLUS_2          12           221
  CLUS_3           1            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"

Clustering(266) Variable = TFDP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFDP1 MUTATED        0      0      1      0
  TFDP1 WILD-TYPE      5      7      4      3
D266V1, multiclass
[1] "Remove cluster labels:" "TFDP1 MUTATED"         
clus
  TFDP1 MUTATED TFDP1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2661      TCGA-44-2665 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP1 MUTATED        1      0      0
  TFDP1 WILD-TYPE      6      9      4
D266V2, multiclass
[1] "Remove cluster labels:" "TFDP1 MUTATED"         
clus
  TFDP1 MUTATED TFDP1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2661      TCGA-44-2665 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" "TFDP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFDP1 MUTATED        1      3      2      2
  TFDP1 WILD-TYPE     64    207     70    129
D266V3, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             3             207
  CLUS_3             2              70
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP1 MUTATED        0      4      3
  TFDP1 WILD-TYPE    131    134    158
D266V4, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             4             134
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP1 MUTATED        3      0      0
  TFDP1 WILD-TYPE     39     71     63
D266V5, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             0              71
  CLUS_3             0              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 CLUS_4 CLUS_5
  TFDP1 MUTATED        0      1      0      0      2
  TFDP1 WILD-TYPE     39     31     43     30     30
D266V6, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP1 MUTATED        3      2      3
  TFDP1 WILD-TYPE    147    183    140
D266V7, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             2             183
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TFDP1 MUTATED        2      1      1      2      1      0      1
  TFDP1 WILD-TYPE     70    108     89     42     48     46     67
D266V8, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             1              67
[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
  TFDP1 MUTATED        3      4      1
  TFDP1 WILD-TYPE    172    207     89
D266V9, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             4             207
  CLUS_3             1              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
  TFDP1 MUTATED        2      2      3      1
  TFDP1 WILD-TYPE     68    184    128     88
D266V10, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             184
  CLUS_3             3             128
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP1 MUTATED        3      4      0
  TFDP1 WILD-TYPE    138    178     89
D266V11, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             4             178
  CLUS_3             0              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
  TFDP1 MUTATED        3      3      1
  TFDP1 WILD-TYPE     91    230     84
D266V12, multiclass
        clus
vv       TFDP1 MUTATED TFDP1 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(267) Variable = NLGN2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLGN2 MUTATED        0      2      0      0
  NLGN2 WILD-TYPE      5      5      5      3
D267V1, multiclass
[1] "Remove cluster labels:" "NLGN2 MUTATED"         
clus
  NLGN2 MUTATED NLGN2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4250      TCGA-35-4123      TCGA-44-2656 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLGN2 MUTATED        0      2      0
  NLGN2 WILD-TYPE      7      7      4
D267V2, multiclass
[1] "Remove cluster labels:" "NLGN2 MUTATED"         
clus
  NLGN2 MUTATED NLGN2 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4250      TCGA-35-4123      TCGA-44-2656 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3398 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-3919      TCGA-44-4112      TCGA-55-1592 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-55-1595      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"NLGN2 WILD-TYPE" "NLGN2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLGN2 MUTATED        0      3      1      5
  NLGN2 WILD-TYPE     65    207     71    126
D267V3, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             3             207
  CLUS_3             1              71
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLGN2 MUTATED        3      0      4
  NLGN2 WILD-TYPE    128    138    157
D267V4, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             0             138
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLGN2 MUTATED        1      2      1
  NLGN2 WILD-TYPE     41     69     62
D267V5, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLGN2 MUTATED        2      0      0      2      0
  NLGN2 WILD-TYPE     37     32     43     28     32
D267V6, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             0              43
  CLUS_4             2              28
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLGN2 MUTATED        2      7      0
  NLGN2 WILD-TYPE    148    178    143
D267V7, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             7             178
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NLGN2 MUTATED        2      3      2      0      0      1      1
  NLGN2 WILD-TYPE     70    106     88     44     49     45     67
D267V8, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  NLGN2 MUTATED        2      5      2
  NLGN2 WILD-TYPE    173    206     88
D267V9, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             5             206
  CLUS_3             2              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
  NLGN2 MUTATED        1      2      3      3
  NLGN2 WILD-TYPE     69    184    128     86
D267V10, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLGN2 MUTATED        2      4      1
  NLGN2 WILD-TYPE    139    178     88
D267V11, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             1              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
  NLGN2 MUTATED        0      6      1
  NLGN2 WILD-TYPE     94    227     84
D267V12, multiclass
        clus
vv       NLGN2 MUTATED NLGN2 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             6             227
  CLUS_3             1              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"

Clustering(268) Variable = PLEKHG5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHG5 MUTATED        0      0      0      0
  PLEKHG5 WILD-TYPE      5      7      5      3
D268V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHG5 MUTATED        0      0      0
  PLEKHG5 WILD-TYPE      7      9      4
D268V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHG5 MUTATED        0      4      0      3
  PLEKHG5 WILD-TYPE     65    206     72    128
D268V3, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               4               206
  CLUS_3               0                72
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHG5 MUTATED        2      1      4
  PLEKHG5 WILD-TYPE    129    137    157
D268V4, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               1               137
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHG5 MUTATED        0      1      1
  PLEKHG5 WILD-TYPE     42     70     62
D268V5, multiclass
[1] "Remove cluster labels:" "PLEKHG5 MUTATED"       
clus
  PLEKHG5 MUTATED PLEKHG5 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6970 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7728        TCGA-55-7815 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-55-7911        TCGA-64-1676        TCGA-64-1677        TCGA-64-1679 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-64-1681        TCGA-64-5774        TCGA-64-5778        TCGA-64-5781 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-6215        TCGA-67-6216        TCGA-67-6217 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-69-7760        TCGA-69-7761        TCGA-69-7763        TCGA-69-7764 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-69-7765        TCGA-71-6725        TCGA-73-4658        TCGA-73-4659 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-73-4675        TCGA-73-4676        TCGA-73-7498        TCGA-73-7499 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-75-5122        TCGA-75-6203        TCGA-75-6205        TCGA-75-6207 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-75-6211        TCGA-75-6212        TCGA-75-6214        TCGA-75-7027 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-75-7030        TCGA-75-7031        TCGA-78-7143        TCGA-78-7145 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7147        TCGA-78-7148        TCGA-78-7149        TCGA-78-7150 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7152        TCGA-78-7153        TCGA-78-7154        TCGA-78-7155 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7156        TCGA-78-7158        TCGA-78-7159        TCGA-78-7160 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7161        TCGA-78-7162        TCGA-78-7163        TCGA-78-7166 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7167        TCGA-78-7535        TCGA-78-7536        TCGA-78-7537 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7539        TCGA-78-7540        TCGA-78-7542        TCGA-78-7633 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-80-5607        TCGA-80-5608        TCGA-86-6562        TCGA-86-6851 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-86-7713        TCGA-91-6828        TCGA-91-6829        TCGA-91-6835 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-91-6840        TCGA-91-6847        TCGA-91-6849        TCGA-91-7771 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-93-7348        TCGA-95-7039        TCGA-95-7043        TCGA-95-7567 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHG5 MUTATED        0      0      1      0      1
  PLEKHG5 WILD-TYPE     39     32     42     30     31
D268V6, multiclass
[1] "Remove cluster labels:" "PLEKHG5 MUTATED"       
clus
  PLEKHG5 MUTATED PLEKHG5 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6970 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7728        TCGA-55-7815 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-55-7911        TCGA-64-1676        TCGA-64-1677        TCGA-64-1679 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-64-1681        TCGA-64-5774        TCGA-64-5778        TCGA-64-5781 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-6215        TCGA-67-6216        TCGA-67-6217 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-69-7760        TCGA-69-7761        TCGA-69-7763        TCGA-69-7764 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-69-7765        TCGA-71-6725        TCGA-73-4658        TCGA-73-4659 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-73-4675        TCGA-73-4676        TCGA-73-7498        TCGA-73-7499 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-75-5122        TCGA-75-6203        TCGA-75-6205        TCGA-75-6207 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-75-6211        TCGA-75-6212        TCGA-75-6214        TCGA-75-7027 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-75-7030        TCGA-75-7031        TCGA-78-7143        TCGA-78-7145 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7147        TCGA-78-7148        TCGA-78-7149        TCGA-78-7150 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7152        TCGA-78-7153        TCGA-78-7154        TCGA-78-7155 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7156        TCGA-78-7158        TCGA-78-7159        TCGA-78-7160 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7161        TCGA-78-7162        TCGA-78-7163        TCGA-78-7166 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7167        TCGA-78-7535        TCGA-78-7536        TCGA-78-7537 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-78-7539        TCGA-78-7540        TCGA-78-7542        TCGA-78-7633 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-80-5607        TCGA-80-5608        TCGA-86-6562        TCGA-86-6851 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-86-7713        TCGA-91-6828        TCGA-91-6829        TCGA-91-6835 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-91-6840        TCGA-91-6847        TCGA-91-6849        TCGA-91-7771 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-93-7348        TCGA-95-7039        TCGA-95-7043        TCGA-95-7567 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"PLEKHG5 WILD-TYPE" "PLEKHG5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHG5 MUTATED        3      4      0
  PLEKHG5 WILD-TYPE    147    181    143
D268V7, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               3               147
  CLUS_2               4               181
  CLUS_3               0               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PLEKHG5 MUTATED        1      3      1      0      0      1      1
  PLEKHG5 WILD-TYPE     71    106     89     44     49     45     67
D268V8, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               3               106
  CLUS_3               1                89
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               1                67
[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
  PLEKHG5 MUTATED        1      3      3
  PLEKHG5 WILD-TYPE    174    208     87
D268V9, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               3               208
  CLUS_3               3                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
  PLEKHG5 MUTATED        0      4      2      1
  PLEKHG5 WILD-TYPE     70    182    129     88
D268V10, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               182
  CLUS_3               2               129
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHG5 MUTATED        2      3      2
  PLEKHG5 WILD-TYPE    139    179     87
D268V11, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               3               179
  CLUS_3               2                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
  PLEKHG5 MUTATED        0      5      2
  PLEKHG5 WILD-TYPE     94    228     83
D268V12, multiclass
        clus
vv       PLEKHG5 MUTATED PLEKHG5 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               5               228
  CLUS_3               2                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"

Clustering(269) Variable = OR5P3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5P3 MUTATED        0      0      0      0
  OR5P3 WILD-TYPE      5      7      5      3
D269V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5P3 MUTATED        0      0      0
  OR5P3 WILD-TYPE      7      9      4
D269V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR5P3 MUTATED        0      2      0      1
  OR5P3 WILD-TYPE     65    208     72    130
D269V3, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             2             208
  CLUS_3             0              72
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5P3 MUTATED        1      0      2
  OR5P3 WILD-TYPE    130    138    159
D269V4, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             0             138
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5P3 MUTATED        0      2      0
  OR5P3 WILD-TYPE     42     69     63
D269V5, multiclass
[1] "Remove cluster labels:" "OR5P3 MUTATED"         
clus
  OR5P3 MUTATED OR5P3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4398      TCGA-05-4402 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-05-4405      TCGA-05-4410      TCGA-05-4417      TCGA-05-4418 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR5P3 MUTATED        0      1      0      1      0
  OR5P3 WILD-TYPE     39     31     43     29     32
D269V6, multiclass
[1] "Remove cluster labels:" "OR5P3 MUTATED"         
clus
  OR5P3 MUTATED OR5P3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4398      TCGA-05-4402 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-05-4405      TCGA-05-4410      TCGA-05-4417      TCGA-05-4418 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"OR5P3 WILD-TYPE" "OR5P3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5P3 MUTATED        1      1      1
  OR5P3 WILD-TYPE    149    184    142
D269V7, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             1             184
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OR5P3 MUTATED        0      1      0      1      0      1      0
  OR5P3 WILD-TYPE     72    108     90     43     49     45     68
D269V8, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             0              90
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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
  OR5P3 MUTATED        0      2      1
  OR5P3 WILD-TYPE    175    209     89
D269V9, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             2             209
  CLUS_3             1              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
  OR5P3 MUTATED        0      2      0      1
  OR5P3 WILD-TYPE     70    184    131     88
D269V10, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             0             131
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR5P3 MUTATED        1      1      1
  OR5P3 WILD-TYPE    140    181     88
D269V11, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             1             181
  CLUS_3             1              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
  OR5P3 MUTATED        1      2      0
  OR5P3 WILD-TYPE     93    231     85
D269V12, multiclass
        clus
vv       OR5P3 MUTATED OR5P3 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             2             231
  CLUS_3             0              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"

Clustering(270) Variable = CHD5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD5 MUTATED        0      1      0      0
  CHD5 WILD-TYPE      5      6      5      3
D270V1, multiclass
[1] "Remove cluster labels:" "CHD5 MUTATED"          
clus
  CHD5 MUTATED CHD5 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        0      1      0
  CHD5 WILD-TYPE      7      8      4
D270V2, multiclass
[1] "Remove cluster labels:" "CHD5 MUTATED"          
clus
  CHD5 MUTATED CHD5 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"CHD5 WILD-TYPE" "CHD5 WILD-TYPE" "CHD5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD5 MUTATED        6     10      2     12
  CHD5 WILD-TYPE     59    200     70    119
D270V3, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            6             59
  CLUS_2           10            200
  CLUS_3            2             70
  CLUS_4           12            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        6     13     11
  CHD5 WILD-TYPE    125    125    150
D270V4, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            6            125
  CLUS_2           13            125
  CLUS_3           11            150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        1      2      4
  CHD5 WILD-TYPE     41     69     59
D270V5, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            2             69
  CLUS_3            4             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 CLUS_4 CLUS_5
  CHD5 MUTATED        2      1      2      1      1
  CHD5 WILD-TYPE     37     31     41     29     31
D270V6, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            1             31
  CLUS_3            2             41
  CLUS_4            1             29
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        8     14      8
  CHD5 WILD-TYPE    142    171    135
D270V7, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            8            142
  CLUS_2           14            171
  CLUS_3            8            135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CHD5 MUTATED        3      9      5      1      5      3      4
  CHD5 WILD-TYPE     69    100     85     43     44     43     64
D270V8, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            3             69
  CLUS_2            9            100
  CLUS_3            5             85
  CLUS_4            1             43
  CLUS_5            5             44
  CLUS_6            3             43
  CLUS_7            4             64
[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
  CHD5 MUTATED        6     18      6
  CHD5 WILD-TYPE    169    193     84
D270V9, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            6            169
  CLUS_2           18            193
  CLUS_3            6             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
  CHD5 MUTATED        5     19      3      3
  CHD5 WILD-TYPE     65    167    128     86
D270V10, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            5             65
  CLUS_2           19            167
  CLUS_3            3            128
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD5 MUTATED        7     12     10
  CHD5 WILD-TYPE    134    170     79
D270V11, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            7            134
  CLUS_2           12            170
  CLUS_3           10             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
  CHD5 MUTATED        1     24      4
  CHD5 WILD-TYPE     93    209     81
D270V12, multiclass
        clus
vv       CHD5 MUTATED CHD5 WILD-TYPE
  CLUS_1            1             93
  CLUS_2           24            209
  CLUS_3            4             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"

Clustering(271) Variable = FBXO34 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXO34 MUTATED        0      0      0      0
  FBXO34 WILD-TYPE      5      7      5      3
D271V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        0      0      0
  FBXO34 WILD-TYPE      7      9      4
D271V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXO34 MUTATED        1      0      2      3
  FBXO34 WILD-TYPE     64    210     70    128
D271V3, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              0              210
  CLUS_3              2               70
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        0      3      3
  FBXO34 WILD-TYPE    131    135    158
D271V4, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              3              135
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        0      1      1
  FBXO34 WILD-TYPE     42     70     62
D271V5, multiclass
[1] "Remove cluster labels:" "FBXO34 MUTATED"        
clus
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4494 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXO34 MUTATED        1      0      1      0      0
  FBXO34 WILD-TYPE     38     32     42     30     32
D271V6, multiclass
[1] "Remove cluster labels:" "FBXO34 MUTATED"        
clus
  FBXO34 MUTATED FBXO34 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4494 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-49-4501       TCGA-49-4505       TCGA-49-4506       TCGA-49-4507 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-49-4510       TCGA-49-4512       TCGA-49-4514       TCGA-49-6742 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-49-6744       TCGA-49-6745       TCGA-49-6761       TCGA-49-6767 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5044       TCGA-50-5049       TCGA-50-5051       TCGA-50-5068 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5072       TCGA-50-5931       TCGA-50-5932       TCGA-50-5933 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5936       TCGA-50-5939       TCGA-50-5941       TCGA-50-5942 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7156       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"FBXO34 WILD-TYPE" "FBXO34 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        0      5      1
  FBXO34 WILD-TYPE    150    180    142
D271V7, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              5              180
  CLUS_3              1              142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FBXO34 MUTATED        0      3      3      0      0      0      0
  FBXO34 WILD-TYPE     72    106     87     44     49     46     68
D271V8, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              3               87
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              0               68
[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
  FBXO34 MUTATED        1      5      0
  FBXO34 WILD-TYPE    174    206     90
D271V9, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              5              206
  CLUS_3              0               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
  FBXO34 MUTATED        0      6      0      0
  FBXO34 WILD-TYPE     70    180    131     89
D271V10, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              6              180
  CLUS_3              0              131
  CLUS_4              0               89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FBXO34 MUTATED        1      4      0
  FBXO34 WILD-TYPE    140    178     89
D271V11, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              1              140
  CLUS_2              4              178
  CLUS_3              0               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
  FBXO34 MUTATED        0      4      1
  FBXO34 WILD-TYPE     94    229     84
D271V12, multiclass
        clus
vv       FBXO34 MUTATED FBXO34 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              4              229
  CLUS_3              1               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"

Clustering(272) Variable = TXLNB MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXLNB MUTATED        0      1      0      0
  TXLNB WILD-TYPE      5      6      5      3
D272V1, multiclass
[1] "Remove cluster labels:" "TXLNB MUTATED"         
clus
  TXLNB MUTATED TXLNB WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1677 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TXLNB MUTATED        0      1      0
  TXLNB WILD-TYPE      7      8      4
D272V2, multiclass
[1] "Remove cluster labels:" "TXLNB MUTATED"         
clus
  TXLNB MUTATED TXLNB WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1677 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"TXLNB WILD-TYPE" "TXLNB WILD-TYPE" "TXLNB WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TXLNB MUTATED        1      7      4      5
  TXLNB WILD-TYPE     64    203     68    126
D272V3, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             1              64
  CLUS_2             7             203
  CLUS_3             4              68
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TXLNB MUTATED        2      6      7
  TXLNB WILD-TYPE    129    132    154
D272V4, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             2             129
  CLUS_2             6             132
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TXLNB MUTATED        3      2      2
  TXLNB WILD-TYPE     39     69     61
D272V5, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2              69
  CLUS_3             2              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
  TXLNB MUTATED        1      1      2      1      2
  TXLNB WILD-TYPE     38     31     41     29     30
D272V6, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TXLNB MUTATED        5      8      4
  TXLNB WILD-TYPE    145    177    139
D272V7, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             5             145
  CLUS_2             8             177
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TXLNB MUTATED        1      4      3      0      4      1      4
  TXLNB WILD-TYPE     71    105     87     44     45     45     64
D272V8, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             4              45
  CLUS_6             1              45
  CLUS_7             4              64
[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
  TXLNB MUTATED        3     10      4
  TXLNB WILD-TYPE    172    201     86
D272V9, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             3             172
  CLUS_2            10             201
  CLUS_3             4              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
  TXLNB MUTATED        1      6      5      5
  TXLNB WILD-TYPE     69    180    126     84
D272V10, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             1              69
  CLUS_2             6             180
  CLUS_3             5             126
  CLUS_4             5              84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TXLNB MUTATED        4      8      3
  TXLNB WILD-TYPE    137    174     86
D272V11, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             4             137
  CLUS_2             8             174
  CLUS_3             3              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
  TXLNB MUTATED        2     10      3
  TXLNB WILD-TYPE     92    223     82
D272V12, multiclass
        clus
vv       TXLNB MUTATED TXLNB WILD-TYPE
  CLUS_1             2              92
  CLUS_2            10             223
  CLUS_3             3              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"

Clustering(273) Variable = HSPA1L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSPA1L MUTATED        0      0      0      0
  HSPA1L WILD-TYPE      5      7      5      3
D273V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA1L MUTATED        0      0      0
  HSPA1L WILD-TYPE      7      9      4
D273V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HSPA1L MUTATED        0      6      3      1
  HSPA1L WILD-TYPE     65    204     69    130
D273V3, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              0               65
  CLUS_2              6              204
  CLUS_3              3               69
  CLUS_4              1              130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA1L MUTATED        2      2      3
  HSPA1L WILD-TYPE    129    136    158
D273V4, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              2              129
  CLUS_2              2              136
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA1L MUTATED        1      1      2
  HSPA1L WILD-TYPE     41     70     61
D273V5, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1               70
  CLUS_3              2               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
  HSPA1L MUTATED        1      0      1      1      1
  HSPA1L WILD-TYPE     38     32     42     29     31
D273V6, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA1L MUTATED        2      6      2
  HSPA1L WILD-TYPE    148    179    141
D273V7, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              2              148
  CLUS_2              6              179
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HSPA1L MUTATED        1      2      2      0      2      2      1
  HSPA1L WILD-TYPE     71    107     88     44     47     44     67
D273V8, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              1               71
  CLUS_2              2              107
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              1               67
[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
  HSPA1L MUTATED        2      7      1
  HSPA1L WILD-TYPE    173    204     89
D273V9, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              2              173
  CLUS_2              7              204
  CLUS_3              1               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
  HSPA1L MUTATED        0      4      0      6
  HSPA1L WILD-TYPE     70    182    131     83
D273V10, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              182
  CLUS_3              0              131
  CLUS_4              6               83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HSPA1L MUTATED        1      4      2
  HSPA1L WILD-TYPE    140    178     87
D273V11, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              1              140
  CLUS_2              4              178
  CLUS_3              2               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
  HSPA1L MUTATED        0      6      1
  HSPA1L WILD-TYPE     94    227     84
D273V12, multiclass
        clus
vv       HSPA1L MUTATED HSPA1L WILD-TYPE
  CLUS_1              0               94
  CLUS_2              6              227
  CLUS_3              1               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"

Clustering(274) Variable = NUMA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUMA1 MUTATED        0      0      0      0
  NUMA1 WILD-TYPE      5      7      5      3
D274V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUMA1 MUTATED        0      0      0
  NUMA1 WILD-TYPE      7      9      4
D274V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUMA1 MUTATED        1      9      5      2
  NUMA1 WILD-TYPE     64    201     67    129
D274V3, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             9             201
  CLUS_3             5              67
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUMA1 MUTATED        4      6      6
  NUMA1 WILD-TYPE    127    132    155
D274V4, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             6             132
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUMA1 MUTATED        1      2      2
  NUMA1 WILD-TYPE     41     69     61
D274V5, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             2              69
  CLUS_3             2              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
  NUMA1 MUTATED        0      1      3      0      1
  NUMA1 WILD-TYPE     39     31     40     30     31
D274V6, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             3              40
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUMA1 MUTATED        4      7      6
  NUMA1 WILD-TYPE    146    178    137
D274V7, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             7             178
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NUMA1 MUTATED        2      6      5      2      1      1      0
  NUMA1 WILD-TYPE     70    103     85     42     48     45     68
D274V8, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             6             103
  CLUS_3             5              85
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  NUMA1 MUTATED        4     10      3
  NUMA1 WILD-TYPE    171    201     87
D274V9, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             4             171
  CLUS_2            10             201
  CLUS_3             3              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
  NUMA1 MUTATED        1     11      3      2
  NUMA1 WILD-TYPE     69    175    128     87
D274V10, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2            11             175
  CLUS_3             3             128
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUMA1 MUTATED        3      8      4
  NUMA1 WILD-TYPE    138    174     85
D274V11, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             8             174
  CLUS_3             4              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
  NUMA1 MUTATED        5      8      2
  NUMA1 WILD-TYPE     89    225     83
D274V12, multiclass
        clus
vv       NUMA1 MUTATED NUMA1 WILD-TYPE
  CLUS_1             5              89
  CLUS_2             8             225
  CLUS_3             2              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"

Clustering(275) Variable = MEFV MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MEFV MUTATED        0      0      0      1
  MEFV WILD-TYPE      5      7      5      2
D275V1, multiclass
[1] "Remove cluster labels:" "MEFV MUTATED"          
clus
  MEFV MUTATED MEFV WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1592     TCGA-55-1595     TCGA-64-1676 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-64-1677     TCGA-67-3772     TCGA-67-3773 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEFV MUTATED        0      0      1
  MEFV WILD-TYPE      7      9      3
D275V2, multiclass
[1] "Remove cluster labels:" "MEFV MUTATED"          
clus
  MEFV MUTATED MEFV WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1592     TCGA-55-1595     TCGA-64-1676 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
    TCGA-64-1677     TCGA-67-3772     TCGA-67-3773 
"MEFV WILD-TYPE" "MEFV WILD-TYPE" "MEFV WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MEFV MUTATED        3      5      5      4
  MEFV WILD-TYPE     62    205     67    127
D275V3, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            3             62
  CLUS_2            5            205
  CLUS_3            5             67
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEFV MUTATED        2      7      6
  MEFV WILD-TYPE    129    131    155
D275V4, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            2            129
  CLUS_2            7            131
  CLUS_3            6            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEFV MUTATED        1      0      2
  MEFV WILD-TYPE     41     71     61
D275V5, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0             71
  CLUS_3            2             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
  MEFV MUTATED        0      1      0      0      2
  MEFV WILD-TYPE     39     31     43     30     30
D275V6, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            0             43
  CLUS_4            0             30
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEFV MUTATED        1      7      7
  MEFV WILD-TYPE    149    178    136
D275V7, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            1            149
  CLUS_2            7            178
  CLUS_3            7            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MEFV MUTATED        1      6      3      1      1      2      1
  MEFV WILD-TYPE     71    103     87     43     48     44     67
D275V8, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            1             71
  CLUS_2            6            103
  CLUS_3            3             87
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            1             67
[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
  MEFV MUTATED        3     12      2
  MEFV WILD-TYPE    172    199     88
D275V9, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            3            172
  CLUS_2           12            199
  CLUS_3            2             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
  MEFV MUTATED        2      6      1      8
  MEFV WILD-TYPE     68    180    130     81
D275V10, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            180
  CLUS_3            1            130
  CLUS_4            8             81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MEFV MUTATED        5      8      2
  MEFV WILD-TYPE    136    174     87
D275V11, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            5            136
  CLUS_2            8            174
  CLUS_3            2             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
  MEFV MUTATED        1     11      3
  MEFV WILD-TYPE     93    222     82
D275V12, multiclass
        clus
vv       MEFV MUTATED MEFV WILD-TYPE
  CLUS_1            1             93
  CLUS_2           11            222
  CLUS_3            3             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"

Clustering(276) Variable = GAN MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAN MUTATED        0      2      0      0
  GAN WILD-TYPE      5      5      5      3
D276V1, multiclass
[1] "Remove cluster labels:" "GAN MUTATED"           
clus
  GAN MUTATED GAN WILD-TYPE 
            2            18 
   TCGA-05-4244    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123    TCGA-44-2656 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3919 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
   TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676    TCGA-64-1677 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
   TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GAN MUTATED        0      2      0
  GAN WILD-TYPE      7      7      4
D276V2, multiclass
[1] "Remove cluster labels:" "GAN MUTATED"           
clus
  GAN MUTATED GAN WILD-TYPE 
            2            18 
   TCGA-05-4244    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123    TCGA-44-2656 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3919 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
   TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676    TCGA-64-1677 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
   TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"GAN WILD-TYPE" "GAN WILD-TYPE" "GAN WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAN MUTATED        0      7      1      2
  GAN WILD-TYPE     65    203     71    129
D276V3, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           0            65
  CLUS_2           7           203
  CLUS_3           1            71
  CLUS_4           2           129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GAN MUTATED        3      2      3
  GAN WILD-TYPE    128    136    158
D276V4, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           3           128
  CLUS_2           2           136
  CLUS_3           3           158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GAN MUTATED        2      1      3
  GAN WILD-TYPE     40     70     60
D276V5, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           2            40
  CLUS_2           1            70
  CLUS_3           3            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
  GAN MUTATED        1      2      0      1      2
  GAN WILD-TYPE     38     30     43     29     30
D276V6, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           1            38
  CLUS_2           2            30
  CLUS_3           0            43
  CLUS_4           1            29
  CLUS_5           2            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GAN MUTATED        3      3      4
  GAN WILD-TYPE    147    182    139
D276V7, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           3           147
  CLUS_2           3           182
  CLUS_3           4           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GAN MUTATED        3      3      1      1      0      2      0
  GAN WILD-TYPE     69    106     89     43     49     44     68
D276V8, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           3            69
  CLUS_2           3           106
  CLUS_3           1            89
  CLUS_4           1            43
  CLUS_5           0            49
  CLUS_6           2            44
  CLUS_7           0            68
[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
  GAN MUTATED        2      6      2
  GAN WILD-TYPE    173    205     88
D276V9, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           2           173
  CLUS_2           6           205
  CLUS_3           2            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
  GAN MUTATED        1      4      2      3
  GAN WILD-TYPE     69    182    129     86
D276V10, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           1            69
  CLUS_2           4           182
  CLUS_3           2           129
  CLUS_4           3            86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GAN MUTATED        3      3      1
  GAN WILD-TYPE    138    179     88
D276V11, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           3           138
  CLUS_2           3           179
  CLUS_3           1            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
  GAN MUTATED        1      4      2
  GAN WILD-TYPE     93    229     83
D276V12, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           1            93
  CLUS_2           4           229
  CLUS_3           2            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"

Clustering(277) Variable = SQSTM1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SQSTM1 MUTATED        0      1      0      0
  SQSTM1 WILD-TYPE      5      6      5      3
D277V1, multiclass
[1] "Remove cluster labels:" "SQSTM1 MUTATED"        
clus
  SQSTM1 MUTATED SQSTM1 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SQSTM1 MUTATED        1      0      0
  SQSTM1 WILD-TYPE      6      9      4
D277V2, multiclass
[1] "Remove cluster labels:" "SQSTM1 MUTATED"        
clus
  SQSTM1 MUTATED SQSTM1 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" "SQSTM1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SQSTM1 MUTATED        1      2      3      0
  SQSTM1 WILD-TYPE     64    208     69    131
D277V3, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              3               69
  CLUS_4              0              131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SQSTM1 MUTATED        2      2      2
  SQSTM1 WILD-TYPE    129    136    159
D277V4, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              2              136
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SQSTM1 MUTATED        1      1      2
  SQSTM1 WILD-TYPE     41     70     61
D277V5, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              1               70
  CLUS_3              2               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
  SQSTM1 MUTATED        1      1      0      2      0
  SQSTM1 WILD-TYPE     38     31     43     28     32
D277V6, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              0               43
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SQSTM1 MUTATED        0      2      4
  SQSTM1 WILD-TYPE    150    183    139
D277V7, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              0              150
  CLUS_2              2              183
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SQSTM1 MUTATED        0      1      1      1      1      2      0
  SQSTM1 WILD-TYPE     72    108     89     43     48     44     68
D277V8, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              1               89
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              0               68
[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
  SQSTM1 MUTATED        1      4      1
  SQSTM1 WILD-TYPE    174    207     89
D277V9, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              4              207
  CLUS_3              1               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
  SQSTM1 MUTATED        2      2      0      2
  SQSTM1 WILD-TYPE     68    184    131     87
D277V10, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              2              184
  CLUS_3              0              131
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SQSTM1 MUTATED        2      1      2
  SQSTM1 WILD-TYPE    139    181     87
D277V11, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              1              181
  CLUS_3              2               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
  SQSTM1 MUTATED        1      4      0
  SQSTM1 WILD-TYPE     93    229     85
D277V12, multiclass
        clus
vv       SQSTM1 MUTATED SQSTM1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              4              229
  CLUS_3              0               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"

Clustering(278) Variable = DSN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSN1 MUTATED        0      0      0      0
  DSN1 WILD-TYPE      5      7      5      3
D278V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSN1 MUTATED        0      0      0
  DSN1 WILD-TYPE      7      9      4
D278V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSN1 MUTATED        1      2      2      1
  DSN1 WILD-TYPE     64    208     70    130
D278V3, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            2            208
  CLUS_3            2             70
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSN1 MUTATED        0      4      1
  DSN1 WILD-TYPE    131    134    160
D278V4, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0            131
  CLUS_2            4            134
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSN1 MUTATED        1      0      2
  DSN1 WILD-TYPE     41     71     61
D278V5, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0             71
  CLUS_3            2             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
  DSN1 MUTATED        0      0      2      0      1
  DSN1 WILD-TYPE     39     32     41     30     31
D278V6, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            0             30
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSN1 MUTATED        0      3      3
  DSN1 WILD-TYPE    150    182    140
D278V7, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0            150
  CLUS_2            3            182
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DSN1 MUTATED        0      0      2      0      1      3      0
  DSN1 WILD-TYPE     72    109     88     44     48     43     68
D278V8, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            0            109
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            3             43
  CLUS_7            0             68
[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
  DSN1 MUTATED        0      5      1
  DSN1 WILD-TYPE    175    206     89
D278V9, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0            175
  CLUS_2            5            206
  CLUS_3            1             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
  DSN1 MUTATED        0      5      0      1
  DSN1 WILD-TYPE     70    181    131     88
D278V10, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            5            181
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSN1 MUTATED        1      2      1
  DSN1 WILD-TYPE    140    180     88
D278V11, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            2            180
  CLUS_3            1             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
  DSN1 MUTATED        0      4      0
  DSN1 WILD-TYPE     94    229     85
D278V12, multiclass
        clus
vv       DSN1 MUTATED DSN1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            4            229
  CLUS_3            0             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"

Clustering(279) Variable = NAAA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAAA MUTATED        0      0      0      0
  NAAA WILD-TYPE      5      7      5      3
D279V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAAA MUTATED        0      0      0
  NAAA WILD-TYPE      7      9      4
D279V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NAAA MUTATED        0      0      1      1
  NAAA WILD-TYPE     65    210     71    130
D279V3, multiclass
[1] "Remove cluster labels:" "NAAA MUTATED"          
clus
  NAAA MUTATED NAAA WILD-TYPE 
             2            476 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-05-4382 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4384     TCGA-05-4389     TCGA-05-4390     TCGA-05-4395 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4396     TCGA-05-4397     TCGA-05-4398     TCGA-05-4402 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4403     TCGA-05-4405     TCGA-05-4410     TCGA-05-4415 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4417     TCGA-05-4418     TCGA-05-4420     TCGA-05-4422 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4424     TCGA-05-4425     TCGA-05-4426     TCGA-05-4427 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4430     TCGA-05-4432     TCGA-05-4433     TCGA-05-4434 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5425     TCGA-05-5428 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-5429     TCGA-05-5715     TCGA-35-4122     TCGA-35-4123 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-35-5375     TCGA-38-4625     TCGA-38-4626     TCGA-38-4627 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-38-4628     TCGA-38-4629     TCGA-38-4630     TCGA-38-4631 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-2656 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-5643     TCGA-44-5644     TCGA-44-5645     TCGA-44-6144 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6148 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6774     TCGA-44-6775     TCGA-44-6776     TCGA-44-6777 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6778     TCGA-44-6779     TCGA-44-7659     TCGA-44-7660 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-7661     TCGA-44-7662     TCGA-44-7667     TCGA-44-7669 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-44-8117 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-8119     TCGA-44-8120     TCGA-44-A479     TCGA-44-A47A 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-A47B     TCGA-44-A47F     TCGA-44-A47G     TCGA-44-A4SS 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-A4SU     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4490     TCGA-49-4494     TCGA-49-4501     TCGA-49-4505 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4506     TCGA-49-4507     TCGA-49-4510     TCGA-49-4512 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4514     TCGA-49-6742     TCGA-49-6743     TCGA-49-6744 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-6745     TCGA-49-6761     TCGA-49-6767     TCGA-50-5044 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5045     TCGA-50-5049     TCGA-50-5051     TCGA-50-5055 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5066     TCGA-50-5068     TCGA-50-5072     TCGA-50-5930 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     TCGA-50-5935 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5944     TCGA-50-5946     TCGA-50-6590     TCGA-50-6591 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-6592     TCGA-50-6593     TCGA-50-6594     TCGA-50-6595 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-50-8457 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-8459     TCGA-50-8460     TCGA-53-7624     TCGA-53-7626 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-53-7813     TCGA-53-A4EZ     TCGA-55-1592     TCGA-55-1595 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-5899     TCGA-55-6543     TCGA-55-6642     TCGA-55-6712 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6968     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6972     TCGA-55-6975     TCGA-55-6978     TCGA-55-6979 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7281     TCGA-55-7283     TCGA-55-7284     TCGA-55-7570 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7576     TCGA-55-7724 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7725     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7995     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8097     TCGA-55-8203     TCGA-55-8204 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8205     TCGA-55-8206     TCGA-55-8207     TCGA-55-8208 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8299     TCGA-55-8301     TCGA-55-8302     TCGA-55-8505 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8506     TCGA-55-8507     TCGA-55-8508     TCGA-55-8510 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8511     TCGA-55-8512     TCGA-55-8513     TCGA-55-8514 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8614     TCGA-55-8615     TCGA-55-8616     TCGA-55-8619 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X     TCGA-55-A48Y 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491     TCGA-55-A492 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF     TCGA-55-A4DG 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-62-8394     TCGA-62-8395     TCGA-62-8397     TCGA-62-8398 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O     TCGA-62-A46P 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U     TCGA-62-A46V 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471     TCGA-62-A472 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-1676     TCGA-64-1677     TCGA-64-1679     TCGA-64-1681 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-3771     TCGA-67-3772 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-67-3773     TCGA-67-4679     TCGA-67-6215     TCGA-67-6216 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-69-7973     TCGA-69-7974 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-69-7978     TCGA-69-7979     TCGA-69-7980     TCGA-69-8253 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4662     TCGA-73-4666 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-4668     TCGA-73-4670     TCGA-73-4675     TCGA-73-4676 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-4677     TCGA-73-7498     TCGA-73-7499     TCGA-75-5122 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-5125     TCGA-75-5126     TCGA-75-5146     TCGA-75-5147 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-6203     TCGA-75-6205     TCGA-75-6206     TCGA-75-6207 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7025 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7146     TCGA-78-7147     TCGA-78-7148 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7220 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7535     TCGA-78-7536     TCGA-78-7537     TCGA-78-7539 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7540     TCGA-78-7542     TCGA-78-7633     TCGA-78-8640 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-8648     TCGA-78-8655     TCGA-78-8660     TCGA-78-8662 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-80-5611     TCGA-83-5908 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7701     TCGA-86-7711 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-7713     TCGA-86-7714     TCGA-86-7953     TCGA-86-7954 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8672     TCGA-86-8673 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-8674     TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829     TCGA-91-6830 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-6831     TCGA-91-6835     TCGA-91-6836     TCGA-91-6840 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-6847     TCGA-91-6848     TCGA-91-6849     TCGA-91-8496 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-93-7347     TCGA-93-7348     TCGA-93-8067     TCGA-93-A4JN 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-95-7043     TCGA-95-7562     TCGA-95-7567     TCGA-95-7944 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-95-8039     TCGA-95-8494 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-95-A4VK     TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-7547     TCGA-97-7552     TCGA-97-7553     TCGA-97-7554 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-7937     TCGA-97-7938     TCGA-97-7941     TCGA-97-8171 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-8172     TCGA-97-8174     TCGA-97-8175     TCGA-97-8176 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-8177     TCGA-97-8179     TCGA-97-8547     TCGA-97-8552 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-A4LX     TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-A4M3     TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-99-7458     TCGA-99-8025     TCGA-99-8028     TCGA-99-8032 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-99-8033     TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-J2-A4AE     TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-L9-A443     TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-MN-A4N5     TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-NJ-A55A     TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAAA MUTATED        1      1      1
  NAAA WILD-TYPE    130    137    160
D279V4, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            1            130
  CLUS_2            1            137
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAAA MUTATED        1      0      0
  NAAA WILD-TYPE     41     71     63
D279V5, multiclass
[1] "Remove cluster labels:" "NAAA MUTATED"          
clus
  NAAA MUTATED NAAA WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-69-7765     TCGA-71-6725 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4675     TCGA-73-4676 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-6203 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7147     TCGA-78-7148 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7535 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-80-5607     TCGA-80-5608 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7713     TCGA-91-6828 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-6829     TCGA-91-6835     TCGA-91-6840     TCGA-91-6847 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-6849     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NAAA MUTATED        0      0      0      0      1
  NAAA WILD-TYPE     39     32     43     30     31
D279V6, multiclass
[1] "Remove cluster labels:" "NAAA MUTATED"          
clus
  NAAA MUTATED NAAA WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-69-7765     TCGA-71-6725 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4675     TCGA-73-4676 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-6203 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7147     TCGA-78-7148 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7535 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-80-5607     TCGA-80-5608 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7713     TCGA-91-6828 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-6829     TCGA-91-6835     TCGA-91-6840     TCGA-91-6847 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-91-6849     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"NAAA WILD-TYPE" "NAAA WILD-TYPE" "NAAA WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAAA MUTATED        0      2      1
  NAAA WILD-TYPE    150    183    142
D279V7, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            0            150
  CLUS_2            2            183
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NAAA MUTATED        0      2      0      1      0      0      0
  NAAA WILD-TYPE     72    107     90     43     49     46     68
D279V8, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            0             90
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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
  NAAA MUTATED        1      1      1
  NAAA WILD-TYPE    174    210     89
D279V9, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            1            174
  CLUS_2            1            210
  CLUS_3            1             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
  NAAA MUTATED        0      1      2      0
  NAAA WILD-TYPE     70    185    129     89
D279V10, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            185
  CLUS_3            2            129
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NAAA MUTATED        2      0      1
  NAAA WILD-TYPE    139    182     88
D279V11, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            2            139
  CLUS_2            0            182
  CLUS_3            1             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
  NAAA MUTATED        1      1      1
  NAAA WILD-TYPE     93    232     84
D279V12, multiclass
        clus
vv       NAAA MUTATED NAAA WILD-TYPE
  CLUS_1            1             93
  CLUS_2            1            232
  CLUS_3            1             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"

Clustering(280) Variable = GART MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GART MUTATED        0      1      0      0
  GART WILD-TYPE      5      6      5      3
D280V1, multiclass
[1] "Remove cluster labels:" "GART MUTATED"          
clus
  GART MUTATED GART WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GART MUTATED        0      1      0
  GART WILD-TYPE      7      8      4
D280V2, multiclass
[1] "Remove cluster labels:" "GART MUTATED"          
clus
  GART MUTATED GART WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3919     TCGA-44-4112 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"GART WILD-TYPE" "GART WILD-TYPE" "GART WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GART MUTATED        0      3      1      2
  GART WILD-TYPE     65    207     71    129
D280V3, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            0             65
  CLUS_2            3            207
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GART MUTATED        1      2      3
  GART WILD-TYPE    130    136    158
D280V4, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            1            130
  CLUS_2            2            136
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GART MUTATED        0      0      0
  GART WILD-TYPE     42     71     63
D280V5, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GART MUTATED        0      0      0      0      0
  GART WILD-TYPE     39     32     43     30     32
D280V6, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GART MUTATED        0      4      2
  GART WILD-TYPE    150    181    141
D280V7, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            0            150
  CLUS_2            4            181
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GART MUTATED        0      1      3      1      0      1      0
  GART WILD-TYPE     72    108     87     43     49     45     68
D280V8, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            3             87
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            0             68
[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
  GART MUTATED        1      4      1
  GART WILD-TYPE    174    207     89
D280V9, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            1            174
  CLUS_2            4            207
  CLUS_3            1             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
  GART MUTATED        1      3      0      2
  GART WILD-TYPE     69    183    131     87
D280V10, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            0            131
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GART MUTATED        1      3      1
  GART WILD-TYPE    140    179     88
D280V11, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            1             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
  GART MUTATED        1      4      0
  GART WILD-TYPE     93    229     85
D280V12, multiclass
        clus
vv       GART MUTATED GART WILD-TYPE
  CLUS_1            1             93
  CLUS_2            4            229
  CLUS_3            0             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"

Clustering(281) Variable = TARBP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TARBP1 MUTATED        0      0      0      0
  TARBP1 WILD-TYPE      5      7      5      3
D281V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TARBP1 MUTATED        0      0      0
  TARBP1 WILD-TYPE      7      9      4
D281V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TARBP1 MUTATED        1      4      4      4
  TARBP1 WILD-TYPE     64    206     68    127
D281V3, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4              206
  CLUS_3              4               68
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TARBP1 MUTATED        4      4      5
  TARBP1 WILD-TYPE    127    134    156
D281V4, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              4              134
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TARBP1 MUTATED        2      1      2
  TARBP1 WILD-TYPE     40     70     61
D281V5, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              1               70
  CLUS_3              2               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
  TARBP1 MUTATED        0      1      2      1      1
  TARBP1 WILD-TYPE     39     31     41     29     31
D281V6, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TARBP1 MUTATED        6      5      3
  TARBP1 WILD-TYPE    144    180    140
D281V7, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              6              144
  CLUS_2              5              180
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TARBP1 MUTATED        2      5      4      1      0      1      1
  TARBP1 WILD-TYPE     70    104     86     43     49     45     67
D281V8, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              2               70
  CLUS_2              5              104
  CLUS_3              4               86
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              1               67
[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
  TARBP1 MUTATED        9      4      1
  TARBP1 WILD-TYPE    166    207     89
D281V9, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              9              166
  CLUS_2              4              207
  CLUS_3              1               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
  TARBP1 MUTATED        2      5      6      1
  TARBP1 WILD-TYPE     68    181    125     88
D281V10, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              181
  CLUS_3              6              125
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TARBP1 MUTATED        6      5      1
  TARBP1 WILD-TYPE    135    177     88
D281V11, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              6              135
  CLUS_2              5              177
  CLUS_3              1               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
  TARBP1 MUTATED        1      7      4
  TARBP1 WILD-TYPE     93    226     81
D281V12, multiclass
        clus
vv       TARBP1 MUTATED TARBP1 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              7              226
  CLUS_3              4               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"

Clustering(282) Variable = HLA-DQA2 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-DQA2 MUTATED        0      0      0      0
  HLA-DQA2 WILD-TYPE      5      7      5      3
D282V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HLA-DQA2 MUTATED        0      0      0
  HLA-DQA2 WILD-TYPE      7      9      4
D282V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HLA-DQA2 MUTATED        0      3      0      0
  HLA-DQA2 WILD-TYPE     65    207     72    131
D282V3, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                0                 65
  CLUS_2                3                207
  CLUS_3                0                 72
  CLUS_4                0                131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HLA-DQA2 MUTATED        1      1      1
  HLA-DQA2 WILD-TYPE    130    137    160
D282V4, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                1                130
  CLUS_2                1                137
  CLUS_3                1                160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HLA-DQA2 MUTATED        1      0      0
  HLA-DQA2 WILD-TYPE     41     71     63
D282V5, multiclass
[1] "Remove cluster labels:" "HLA-DQA2 MUTATED"      
clus
  HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE 
                 1                175 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6745 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-6761         TCGA-49-6767         TCGA-50-5044 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5049         TCGA-50-5051         TCGA-50-5068 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5072         TCGA-50-5931         TCGA-50-5932 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5933         TCGA-50-5936         TCGA-50-5939 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5941         TCGA-50-5942         TCGA-50-5944 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-6593         TCGA-50-6595         TCGA-50-6597 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-6673         TCGA-50-7109         TCGA-53-7626 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-53-7813         TCGA-55-1592         TCGA-55-6543 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-6712         TCGA-55-6970         TCGA-55-6971 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-6978         TCGA-55-6979         TCGA-55-6981 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-6982         TCGA-55-7573         TCGA-55-7574 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-7728         TCGA-55-7815         TCGA-55-7911 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-64-1676         TCGA-64-1677         TCGA-64-1679 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-64-1681         TCGA-64-5774         TCGA-64-5778 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-64-5781         TCGA-67-3771         TCGA-67-6215 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-67-6216         TCGA-67-6217         TCGA-69-7760 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-69-7761         TCGA-69-7763         TCGA-69-7764 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-69-7765         TCGA-71-6725         TCGA-73-4658 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-73-4659         TCGA-73-4675         TCGA-73-4676 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-73-7498         TCGA-73-7499         TCGA-75-5122 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-75-6203         TCGA-75-6205         TCGA-75-6207 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-75-6211         TCGA-75-6212         TCGA-75-6214 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-75-7027         TCGA-75-7030         TCGA-75-7031 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7143         TCGA-78-7145         TCGA-78-7147 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7148         TCGA-78-7149         TCGA-78-7150 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7152         TCGA-78-7153         TCGA-78-7154 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7155         TCGA-78-7156         TCGA-78-7158 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7159         TCGA-78-7160         TCGA-78-7161 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7162         TCGA-78-7163         TCGA-78-7166 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7167         TCGA-78-7535         TCGA-78-7536 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7537         TCGA-78-7539         TCGA-78-7540 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7542         TCGA-78-7633         TCGA-80-5607 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-80-5608         TCGA-86-6562         TCGA-86-6851 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-86-7713         TCGA-91-6828         TCGA-91-6829 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-95-7947         TCGA-95-7948         TCGA-97-7546 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-97-7552         TCGA-97-7553         TCGA-97-7554 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-97-7937         TCGA-97-7938         TCGA-97-7941 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-99-7458 
"HLA-DQA2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HLA-DQA2 MUTATED        0      0      0      0      1
  HLA-DQA2 WILD-TYPE     39     32     43     30     31
D282V6, multiclass
[1] "Remove cluster labels:" "HLA-DQA2 MUTATED"      
clus
  HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE 
                 1                175 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6745 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-49-6761         TCGA-49-6767         TCGA-50-5044 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5049         TCGA-50-5051         TCGA-50-5068 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5072         TCGA-50-5931         TCGA-50-5932 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5933         TCGA-50-5936         TCGA-50-5939 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-5941         TCGA-50-5942         TCGA-50-5944 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-6593         TCGA-50-6595         TCGA-50-6597 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-50-6673         TCGA-50-7109         TCGA-53-7626 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-53-7813         TCGA-55-1592         TCGA-55-6543 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-6712         TCGA-55-6970         TCGA-55-6971 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-6978         TCGA-55-6979         TCGA-55-6981 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-6982         TCGA-55-7573         TCGA-55-7574 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-55-7728         TCGA-55-7815         TCGA-55-7911 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-64-1676         TCGA-64-1677         TCGA-64-1679 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-64-1681         TCGA-64-5774         TCGA-64-5778 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-64-5781         TCGA-67-3771         TCGA-67-6215 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-67-6216         TCGA-67-6217         TCGA-69-7760 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-69-7761         TCGA-69-7763         TCGA-69-7764 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-69-7765         TCGA-71-6725         TCGA-73-4658 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-73-4659         TCGA-73-4675         TCGA-73-4676 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-73-7498         TCGA-73-7499         TCGA-75-5122 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-75-6203         TCGA-75-6205         TCGA-75-6207 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-75-6211         TCGA-75-6212         TCGA-75-6214 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-75-7027         TCGA-75-7030         TCGA-75-7031 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7143         TCGA-78-7145         TCGA-78-7147 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7148         TCGA-78-7149         TCGA-78-7150 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7152         TCGA-78-7153         TCGA-78-7154 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7155         TCGA-78-7156         TCGA-78-7158 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7159         TCGA-78-7160         TCGA-78-7161 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7162         TCGA-78-7163         TCGA-78-7166 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7167         TCGA-78-7535         TCGA-78-7536 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7537         TCGA-78-7539         TCGA-78-7540 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-78-7542         TCGA-78-7633         TCGA-80-5607 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-80-5608         TCGA-86-6562         TCGA-86-6851 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-86-7713         TCGA-91-6828         TCGA-91-6829 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-95-7947         TCGA-95-7948         TCGA-97-7546 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-97-7552         TCGA-97-7553         TCGA-97-7554 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-97-7937         TCGA-97-7938         TCGA-97-7941 
"HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" "HLA-DQA2 WILD-TYPE" 
        TCGA-99-7458 
"HLA-DQA2 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HLA-DQA2 MUTATED        1      1      1
  HLA-DQA2 WILD-TYPE    149    184    142
D282V7, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                1                149
  CLUS_2                1                184
  CLUS_3                1                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HLA-DQA2 MUTATED        1      1      0      0      1      0      0
  HLA-DQA2 WILD-TYPE     71    108     90     44     48     46     68
D282V8, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                1                 71
  CLUS_2                1                108
  CLUS_3                0                 90
  CLUS_4                0                 44
  CLUS_5                1                 48
  CLUS_6                0                 46
  CLUS_7                0                 68
[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
  HLA-DQA2 MUTATED        1      2      0
  HLA-DQA2 WILD-TYPE    174    209     90
D282V9, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                1                174
  CLUS_2                2                209
  CLUS_3                0                 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
  HLA-DQA2 MUTATED        0      1      1      1
  HLA-DQA2 WILD-TYPE     70    185    130     88
D282V10, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                1                185
  CLUS_3                1                130
  CLUS_4                1                 88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  HLA-DQA2 MUTATED        1      2      0
  HLA-DQA2 WILD-TYPE    140    180     89
D282V11, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                1                140
  CLUS_2                2                180
  CLUS_3                0                 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
  HLA-DQA2 MUTATED        0      2      1
  HLA-DQA2 WILD-TYPE     94    231     84
D282V12, multiclass
        clus
vv       HLA-DQA2 MUTATED HLA-DQA2 WILD-TYPE
  CLUS_1                0                 94
  CLUS_2                2                231
  CLUS_3                1                 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"

Clustering(283) Variable = AHDC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHDC1 MUTATED        1      1      0      0
  AHDC1 WILD-TYPE      4      6      5      3
D283V1, multiclass
[1] "Remove cluster labels:" "AHDC1 MUTATED"         
clus
  AHDC1 MUTATED AHDC1 WILD-TYPE 
              2              18 
     TCGA-05-4249      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1677      TCGA-67-3771 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHDC1 MUTATED        1      1      0
  AHDC1 WILD-TYPE      6      8      4
D283V2, multiclass
[1] "Remove cluster labels:" "AHDC1 MUTATED"         
clus
  AHDC1 MUTATED AHDC1 WILD-TYPE 
              2              18 
     TCGA-05-4249      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1677      TCGA-67-3771 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHDC1 MUTATED        3      0      2      5
  AHDC1 WILD-TYPE     62    210     70    126
D283V3, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             0             210
  CLUS_3             2              70
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHDC1 MUTATED        0      3      5
  AHDC1 WILD-TYPE    131    135    156
D283V4, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHDC1 MUTATED        0      1      1
  AHDC1 WILD-TYPE     42     70     62
D283V5, multiclass
[1] "Remove cluster labels:" "AHDC1 MUTATED"         
clus
  AHDC1 MUTATED AHDC1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1677 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5781 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AHDC1 MUTATED        0      0      2      0      0
  AHDC1 WILD-TYPE     39     32     41     30     32
D283V6, multiclass
[1] "Remove cluster labels:" "AHDC1 MUTATED"         
clus
  AHDC1 MUTATED AHDC1 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1677 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5781 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"AHDC1 WILD-TYPE" "AHDC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHDC1 MUTATED        2      5      3
  AHDC1 WILD-TYPE    148    180    140
D283V7, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             5             180
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AHDC1 MUTATED        1      4      3      0      0      1      1
  AHDC1 WILD-TYPE     71    105     87     44     49     45     67
D283V8, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  AHDC1 MUTATED        3      6      1
  AHDC1 WILD-TYPE    172    205     89
D283V9, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             6             205
  CLUS_3             1              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
  AHDC1 MUTATED        1      5      2      2
  AHDC1 WILD-TYPE     69    181    129     87
D283V10, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             2             129
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AHDC1 MUTATED        1      5      1
  AHDC1 WILD-TYPE    140    177     88
D283V11, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             5             177
  CLUS_3             1              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
  AHDC1 MUTATED        1      6      0
  AHDC1 WILD-TYPE     93    227     85
D283V12, multiclass
        clus
vv       AHDC1 MUTATED AHDC1 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             6             227
  CLUS_3             0              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"

Clustering(284) Variable = ARHGEF12 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF12 MUTATED        0      1      1      0
  ARHGEF12 WILD-TYPE      5      6      4      3
D284V1, multiclass
[1] "Remove cluster labels:" "ARHGEF12 MUTATED"      
clus
  ARHGEF12 MUTATED ARHGEF12 WILD-TYPE 
                 2                 18 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3398 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-44-3919         TCGA-44-4112         TCGA-55-1592 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-55-1595         TCGA-64-1676         TCGA-64-1677 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-67-3771         TCGA-67-3772         TCGA-67-3773 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF12 MUTATED        1      1      0
  ARHGEF12 WILD-TYPE      6      8      4
D284V2, multiclass
[1] "Remove cluster labels:" "ARHGEF12 MUTATED"      
clus
  ARHGEF12 MUTATED ARHGEF12 WILD-TYPE 
                 2                 18 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-44-2661         TCGA-44-2665         TCGA-44-3398 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-44-3919         TCGA-44-4112         TCGA-55-1592 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-55-1595         TCGA-64-1676         TCGA-64-1677 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
        TCGA-67-3771         TCGA-67-3772         TCGA-67-3773 
"ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" "ARHGEF12 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF12 MUTATED        2      9      4      6
  ARHGEF12 WILD-TYPE     63    201     68    125
D284V3, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                9                201
  CLUS_3                4                 68
  CLUS_4                6                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF12 MUTATED        3      2     10
  ARHGEF12 WILD-TYPE    128    136    151
D284V4, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                3                128
  CLUS_2                2                136
  CLUS_3               10                151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF12 MUTATED        1      3      2
  ARHGEF12 WILD-TYPE     41     68     61
D284V5, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                3                 68
  CLUS_3                2                 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
  ARHGEF12 MUTATED        1      1      3      0      1
  ARHGEF12 WILD-TYPE     38     31     40     30     31
D284V6, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 31
  CLUS_3                3                 40
  CLUS_4                0                 30
  CLUS_5                1                 31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF12 MUTATED        4     11      6
  ARHGEF12 WILD-TYPE    146    174    137
D284V7, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                4                146
  CLUS_2               11                174
  CLUS_3                6                137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARHGEF12 MUTATED        2      6      5      0      5      0      3
  ARHGEF12 WILD-TYPE     70    103     85     44     44     46     65
D284V8, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                2                 70
  CLUS_2                6                103
  CLUS_3                5                 85
  CLUS_4                0                 44
  CLUS_5                5                 44
  CLUS_6                0                 46
  CLUS_7                3                 65
[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
  ARHGEF12 MUTATED        5     14      1
  ARHGEF12 WILD-TYPE    170    197     89
D284V9, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                5                170
  CLUS_2               14                197
  CLUS_3                1                 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
  ARHGEF12 MUTATED        1      8      4      7
  ARHGEF12 WILD-TYPE     69    178    127     82
D284V10, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2                8                178
  CLUS_3                4                127
  CLUS_4                7                 82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  ARHGEF12 MUTATED        3      5      6
  ARHGEF12 WILD-TYPE    138    177     83
D284V11, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                3                138
  CLUS_2                5                177
  CLUS_3                6                 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
  ARHGEF12 MUTATED        3     11      0
  ARHGEF12 WILD-TYPE     91    222     85
D284V12, multiclass
        clus
vv       ARHGEF12 MUTATED ARHGEF12 WILD-TYPE
  CLUS_1                3                 91
  CLUS_2               11                222
  CLUS_3                0                 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"

Clustering(285) Variable = UHRF1BP1L MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UHRF1BP1L MUTATED        0      0      0      0
  UHRF1BP1L WILD-TYPE      5      7      5      3
D285V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        0      0      0
  UHRF1BP1L WILD-TYPE      7      9      4
D285V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UHRF1BP1L MUTATED        3      1      5      7
  UHRF1BP1L WILD-TYPE     62    209     67    124
D285V3, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 3                  62
  CLUS_2                 1                 209
  CLUS_3                 5                  67
  CLUS_4                 7                 124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        2      6      5
  UHRF1BP1L WILD-TYPE    129    132    156
D285V4, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                 129
  CLUS_2                 6                 132
  CLUS_3                 5                 156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        1      0      2
  UHRF1BP1L WILD-TYPE     41     71     61
D285V5, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 1                  41
  CLUS_2                 0                  71
  CLUS_3                 2                  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
  UHRF1BP1L MUTATED        1      0      1      1      0
  UHRF1BP1L WILD-TYPE     38     32     42     29     32
D285V6, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 1                  38
  CLUS_2                 0                  32
  CLUS_3                 1                  42
  CLUS_4                 1                  29
  CLUS_5                 0                  32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        2      7      7
  UHRF1BP1L WILD-TYPE    148    178    136
D285V7, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                 148
  CLUS_2                 7                 178
  CLUS_3                 7                 136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  UHRF1BP1L MUTATED        0      4      7      1      2      1      1
  UHRF1BP1L WILD-TYPE     72    105     83     43     47     45     67
D285V8, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 0                  72
  CLUS_2                 4                 105
  CLUS_3                 7                  83
  CLUS_4                 1                  43
  CLUS_5                 2                  47
  CLUS_6                 1                  45
  CLUS_7                 1                  67
[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
  UHRF1BP1L MUTATED        2     11      2
  UHRF1BP1L WILD-TYPE    173    200     88
D285V9, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                 173
  CLUS_2                11                 200
  CLUS_3                 2                  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
  UHRF1BP1L MUTATED        0      8      3      4
  UHRF1BP1L WILD-TYPE     70    178    128     85
D285V10, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 0                  70
  CLUS_2                 8                 178
  CLUS_3                 3                 128
  CLUS_4                 4                  85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  UHRF1BP1L MUTATED        4      7      1
  UHRF1BP1L WILD-TYPE    137    175     88
D285V11, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 4                 137
  CLUS_2                 7                 175
  CLUS_3                 1                  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
  UHRF1BP1L MUTATED        2      8      2
  UHRF1BP1L WILD-TYPE     92    225     83
D285V12, multiclass
        clus
vv       UHRF1BP1L MUTATED UHRF1BP1L WILD-TYPE
  CLUS_1                 2                  92
  CLUS_2                 8                 225
  CLUS_3                 2                  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"

Clustering(286) Variable = HERC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HERC3 MUTATED        0      0      0      0
  HERC3 WILD-TYPE      5      7      5      3
D286V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC3 MUTATED        0      0      0
  HERC3 WILD-TYPE      7      9      4
D286V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HERC3 MUTATED        0      3      3      2
  HERC3 WILD-TYPE     65    207     69    129
D286V3, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             3             207
  CLUS_3             3              69
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC3 MUTATED        2      2      3
  HERC3 WILD-TYPE    129    136    158
D286V4, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC3 MUTATED        0      0      2
  HERC3 WILD-TYPE     42     71     61
D286V5, multiclass
[1] "Remove cluster labels:" "HERC3 MUTATED"         
clus
  HERC3 MUTATED HERC3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-6742      TCGA-49-6744 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HERC3 MUTATED        0      0      0      2      0
  HERC3 WILD-TYPE     39     32     43     28     32
D286V6, multiclass
[1] "Remove cluster labels:" "HERC3 MUTATED"         
clus
  HERC3 MUTATED HERC3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-6742      TCGA-49-6744 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"HERC3 WILD-TYPE" "HERC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC3 MUTATED        1      4      3
  HERC3 WILD-TYPE    149    181    140
D286V7, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HERC3 MUTATED        0      1      1      1      0      3      2
  HERC3 WILD-TYPE     72    108     89     43     49     43     66
D286V8, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             3              43
  CLUS_7             2              66
[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
  HERC3 MUTATED        1      6      1
  HERC3 WILD-TYPE    174    205     89
D286V9, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             1              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
  HERC3 MUTATED        1      4      1      2
  HERC3 WILD-TYPE     69    182    130     87
D286V10, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             182
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HERC3 MUTATED        2      4      1
  HERC3 WILD-TYPE    139    178     88
D286V11, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             1              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
  HERC3 MUTATED        1      6      0
  HERC3 WILD-TYPE     93    227     85
D286V12, multiclass
        clus
vv       HERC3 MUTATED HERC3 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             6             227
  CLUS_3             0              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"

Clustering(287) Variable = GALNT14 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GALNT14 MUTATED        1      0      0      0
  GALNT14 WILD-TYPE      4      7      5      3
D287V1, multiclass
[1] "Remove cluster labels:" "GALNT14 MUTATED"       
clus
  GALNT14 MUTATED GALNT14 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-64-1676        TCGA-64-1677 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GALNT14 MUTATED        0      0      1
  GALNT14 WILD-TYPE      7      9      3
D287V2, multiclass
[1] "Remove cluster labels:" "GALNT14 MUTATED"       
clus
  GALNT14 MUTATED GALNT14 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-64-1676        TCGA-64-1677 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" "GALNT14 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GALNT14 MUTATED        1      6      3     10
  GALNT14 WILD-TYPE     64    204     69    121
D287V3, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               6               204
  CLUS_3               3                69
  CLUS_4              10               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GALNT14 MUTATED        4      3      8
  GALNT14 WILD-TYPE    127    135    153
D287V4, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               4               127
  CLUS_2               3               135
  CLUS_3               8               153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GALNT14 MUTATED        1      3      3
  GALNT14 WILD-TYPE     41     68     60
D287V5, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3                68
  CLUS_3               3                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
  GALNT14 MUTATED        0      1      3      2      1
  GALNT14 WILD-TYPE     39     31     40     28     31
D287V6, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               3                40
  CLUS_4               2                28
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GALNT14 MUTATED        4     13      3
  GALNT14 WILD-TYPE    146    172    140
D287V7, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               4               146
  CLUS_2              13               172
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GALNT14 MUTATED        2      5      5      1      2      2      3
  GALNT14 WILD-TYPE     70    104     85     43     47     44     65
D287V8, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               2                70
  CLUS_2               5               104
  CLUS_3               5                85
  CLUS_4               1                43
  CLUS_5               2                47
  CLUS_6               2                44
  CLUS_7               3                65
[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
  GALNT14 MUTATED        3     13      3
  GALNT14 WILD-TYPE    172    198     87
D287V9, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               3               172
  CLUS_2              13               198
  CLUS_3               3                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
  GALNT14 MUTATED        1      9      3      6
  GALNT14 WILD-TYPE     69    177    128     83
D287V10, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               9               177
  CLUS_3               3               128
  CLUS_4               6                83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GALNT14 MUTATED        3      9      3
  GALNT14 WILD-TYPE    138    173     86
D287V11, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               3               138
  CLUS_2               9               173
  CLUS_3               3                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
  GALNT14 MUTATED        1     12      2
  GALNT14 WILD-TYPE     93    221     83
D287V12, multiclass
        clus
vv       GALNT14 MUTATED GALNT14 WILD-TYPE
  CLUS_1               1                93
  CLUS_2              12               221
  CLUS_3               2                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"

Clustering(288) Variable = FLT4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLT4 MUTATED        1      0      1      0
  FLT4 WILD-TYPE      4      7      4      3
D288V1, multiclass
[1] "Remove cluster labels:" "FLT4 MUTATED"          
clus
  FLT4 MUTATED FLT4 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-55-1592     TCGA-64-1676     TCGA-64-1677     TCGA-67-3771 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT4 MUTATED        1      0      1
  FLT4 WILD-TYPE      6      9      3
D288V2, multiclass
[1] "Remove cluster labels:" "FLT4 MUTATED"          
clus
  FLT4 MUTATED FLT4 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-55-1592     TCGA-64-1676     TCGA-64-1677     TCGA-67-3771 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"FLT4 WILD-TYPE" "FLT4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLT4 MUTATED        1      4      4      9
  FLT4 WILD-TYPE     64    206     68    122
D288V3, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            4            206
  CLUS_3            4             68
  CLUS_4            9            122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT4 MUTATED        3      4      7
  FLT4 WILD-TYPE    128    134    154
D288V4, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            4            134
  CLUS_3            7            154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT4 MUTATED        1      3      2
  FLT4 WILD-TYPE     41     68     61
D288V5, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3             68
  CLUS_3            2             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
  FLT4 MUTATED        1      0      4      0      1
  FLT4 WILD-TYPE     38     32     39     30     31
D288V6, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            4             39
  CLUS_4            0             30
  CLUS_5            1             31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT4 MUTATED        4     10      4
  FLT4 WILD-TYPE    146    175    139
D288V7, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            4            146
  CLUS_2           10            175
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FLT4 MUTATED        1      6      5      1      0      1      4
  FLT4 WILD-TYPE     71    103     85     43     49     45     64
D288V8, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            6            103
  CLUS_3            5             85
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            4             64
[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
  FLT4 MUTATED        4     10      4
  FLT4 WILD-TYPE    171    201     86
D288V9, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            4            171
  CLUS_2           10            201
  CLUS_3            4             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
  FLT4 MUTATED        2      6      4      6
  FLT4 WILD-TYPE     68    180    127     83
D288V10, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            6            180
  CLUS_3            4            127
  CLUS_4            6             83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT4 MUTATED        4      5      5
  FLT4 WILD-TYPE    137    177     84
D288V11, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            5            177
  CLUS_3            5             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
  FLT4 MUTATED        1     11      2
  FLT4 WILD-TYPE     93    222     83
D288V12, multiclass
        clus
vv       FLT4 MUTATED FLT4 WILD-TYPE
  CLUS_1            1             93
  CLUS_2           11            222
  CLUS_3            2             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"

Clustering(289) Variable = ACBD5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACBD5 MUTATED        0      0      0      0
  ACBD5 WILD-TYPE      5      7      5      3
D289V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACBD5 MUTATED        0      0      0
  ACBD5 WILD-TYPE      7      9      4
D289V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACBD5 MUTATED        3      4      1      3
  ACBD5 WILD-TYPE     62    206     71    128
D289V3, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             3              62
  CLUS_2             4             206
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACBD5 MUTATED        3      3      4
  ACBD5 WILD-TYPE    128    135    157
D289V4, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACBD5 MUTATED        0      0      1
  ACBD5 WILD-TYPE     42     71     62
D289V5, multiclass
[1] "Remove cluster labels:" "ACBD5 MUTATED"         
clus
  ACBD5 MUTATED ACBD5 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ACBD5 MUTATED        0      0      0      1      0
  ACBD5 WILD-TYPE     39     32     43     29     32
D289V6, multiclass
[1] "Remove cluster labels:" "ACBD5 MUTATED"         
clus
  ACBD5 MUTATED ACBD5 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" "ACBD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACBD5 MUTATED        3      6      2
  ACBD5 WILD-TYPE    147    179    141
D289V7, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             6             179
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ACBD5 MUTATED        2      4      3      0      0      1      1
  ACBD5 WILD-TYPE     70    105     87     44     49     45     67
D289V8, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             4             105
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  ACBD5 MUTATED        3      7      1
  ACBD5 WILD-TYPE    172    204     89
D289V9, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             1              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
  ACBD5 MUTATED        1      5      2      3
  ACBD5 WILD-TYPE     69    181    129     86
D289V10, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             2             129
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACBD5 MUTATED        3      6      1
  ACBD5 WILD-TYPE    138    176     88
D289V11, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             6             176
  CLUS_3             1              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
  ACBD5 MUTATED        2      7      1
  ACBD5 WILD-TYPE     92    226     84
D289V12, multiclass
        clus
vv       ACBD5 MUTATED ACBD5 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             7             226
  CLUS_3             1              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"

Clustering(290) Variable = CARD6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CARD6 MUTATED        0      0      0      0
  CARD6 WILD-TYPE      5      7      5      3
D290V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CARD6 MUTATED        0      0      0
  CARD6 WILD-TYPE      7      9      4
D290V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CARD6 MUTATED        5      3      3      3
  CARD6 WILD-TYPE     60    207     69    128
D290V3, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             5              60
  CLUS_2             3             207
  CLUS_3             3              69
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CARD6 MUTATED        1     10      3
  CARD6 WILD-TYPE    130    128    158
D290V4, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             1             130
  CLUS_2            10             128
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CARD6 MUTATED        0      1      1
  CARD6 WILD-TYPE     42     70     62
D290V5, multiclass
[1] "Remove cluster labels:" "CARD6 MUTATED"         
clus
  CARD6 MUTATED CARD6 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-78-7143 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7537 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CARD6 MUTATED        0      1      1      0      0
  CARD6 WILD-TYPE     39     31     42     30     32
D290V6, multiclass
[1] "Remove cluster labels:" "CARD6 MUTATED"         
clus
  CARD6 MUTATED CARD6 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-78-7143 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7537 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"CARD6 WILD-TYPE" "CARD6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CARD6 MUTATED        0      7      7
  CARD6 WILD-TYPE    150    178    136
D290V7, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             7             178
  CLUS_3             7             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CARD6 MUTATED        1      0      8      0      3      2      0
  CARD6 WILD-TYPE     71    109     82     44     46     44     68
D290V8, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             0             109
  CLUS_3             8              82
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             2              44
  CLUS_7             0              68
[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
  CARD6 MUTATED        1     11      2
  CARD6 WILD-TYPE    174    200     88
D290V9, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             1             174
  CLUS_2            11             200
  CLUS_3             2              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
  CARD6 MUTATED        0      5      0      9
  CARD6 WILD-TYPE     70    181    131     80
D290V10, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             181
  CLUS_3             0             131
  CLUS_4             9              80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CARD6 MUTATED        2      7      5
  CARD6 WILD-TYPE    139    175     84
D290V11, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             7             175
  CLUS_3             5              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
  CARD6 MUTATED        0     14      0
  CARD6 WILD-TYPE     94    219     85
D290V12, multiclass
        clus
vv       CARD6 MUTATED CARD6 WILD-TYPE
  CLUS_1             0              94
  CLUS_2            14             219
  CLUS_3             0              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"

Clustering(291) Variable = ANKRD44 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD44 MUTATED        0      0      0      1
  ANKRD44 WILD-TYPE      5      7      5      2
D291V1, multiclass
[1] "Remove cluster labels:" "ANKRD44 MUTATED"       
clus
  ANKRD44 MUTATED ANKRD44 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-55-1595        TCGA-64-1676 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-64-1677        TCGA-67-3772        TCGA-67-3773 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD44 MUTATED        0      0      1
  ANKRD44 WILD-TYPE      7      9      3
D291V2, multiclass
[1] "Remove cluster labels:" "ANKRD44 MUTATED"       
clus
  ANKRD44 MUTATED ANKRD44 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-55-1595        TCGA-64-1676 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
       TCGA-64-1677        TCGA-67-3772        TCGA-67-3773 
"ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" "ANKRD44 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD44 MUTATED        1      7      4      5
  ANKRD44 WILD-TYPE     64    203     68    126
D291V3, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               7               203
  CLUS_3               4                68
  CLUS_4               5               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD44 MUTATED        5      4      8
  ANKRD44 WILD-TYPE    126    134    153
D291V4, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               5               126
  CLUS_2               4               134
  CLUS_3               8               153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD44 MUTATED        1      3      1
  ANKRD44 WILD-TYPE     41     68     62
D291V5, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3                68
  CLUS_3               1                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANKRD44 MUTATED        1      1      2      1      0
  ANKRD44 WILD-TYPE     38     31     41     29     32
D291V6, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               1                31
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD44 MUTATED        5      9      3
  ANKRD44 WILD-TYPE    145    176    140
D291V7, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               5               145
  CLUS_2               9               176
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ANKRD44 MUTATED        1      7      4      2      0      1      2
  ANKRD44 WILD-TYPE     71    102     86     42     49     45     66
D291V8, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               1                71
  CLUS_2               7               102
  CLUS_3               4                86
  CLUS_4               2                42
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               2                66
[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
  ANKRD44 MUTATED        7     10      1
  ANKRD44 WILD-TYPE    168    201     89
D291V9, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               7               168
  CLUS_2              10               201
  CLUS_3               1                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
  ANKRD44 MUTATED        3      8      4      3
  ANKRD44 WILD-TYPE     67    178    127     86
D291V10, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               8               178
  CLUS_3               4               127
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ANKRD44 MUTATED        9      3      4
  ANKRD44 WILD-TYPE    132    179     85
D291V11, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               9               132
  CLUS_2               3               179
  CLUS_3               4                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
  ANKRD44 MUTATED        3     11      2
  ANKRD44 WILD-TYPE     91    222     83
D291V12, multiclass
        clus
vv       ANKRD44 MUTATED ANKRD44 WILD-TYPE
  CLUS_1               3                91
  CLUS_2              11               222
  CLUS_3               2                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"

Clustering(292) Variable = DPEP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPEP2 MUTATED        0      0      0      1
  DPEP2 WILD-TYPE      5      7      5      2
D292V1, multiclass
[1] "Remove cluster labels:" "DPEP2 MUTATED"         
clus
  DPEP2 MUTATED DPEP2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPEP2 MUTATED        0      0      1
  DPEP2 WILD-TYPE      7      9      3
D292V2, multiclass
[1] "Remove cluster labels:" "DPEP2 MUTATED"         
clus
  DPEP2 MUTATED DPEP2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPEP2 MUTATED        1      2      2      2
  DPEP2 WILD-TYPE     64    208     70    129
D292V3, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPEP2 MUTATED        2      2      2
  DPEP2 WILD-TYPE    129    136    159
D292V4, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPEP2 MUTATED        0      1      1
  DPEP2 WILD-TYPE     42     70     62
D292V5, multiclass
[1] "Remove cluster labels:" "DPEP2 MUTATED"         
clus
  DPEP2 MUTATED DPEP2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPEP2 MUTATED        1      0      0      1      0
  DPEP2 WILD-TYPE     38     32     43     29     32
D292V6, multiclass
[1] "Remove cluster labels:" "DPEP2 MUTATED"         
clus
  DPEP2 MUTATED DPEP2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"DPEP2 WILD-TYPE" "DPEP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPEP2 MUTATED        2      2      3
  DPEP2 WILD-TYPE    148    183    140
D292V7, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             2             183
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DPEP2 MUTATED        0      1      4      0      0      1      1
  DPEP2 WILD-TYPE     72    108     86     44     49     45     67
D292V8, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  DPEP2 MUTATED        2      4      1
  DPEP2 WILD-TYPE    173    207     89
D292V9, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             4             207
  CLUS_3             1              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
  DPEP2 MUTATED        0      2      2      3
  DPEP2 WILD-TYPE     70    184    129     86
D292V10, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2             184
  CLUS_3             2             129
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPEP2 MUTATED        1      4      1
  DPEP2 WILD-TYPE    140    178     88
D292V11, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             4             178
  CLUS_3             1              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
  DPEP2 MUTATED        1      4      1
  DPEP2 WILD-TYPE     93    229     84
D292V12, multiclass
        clus
vv       DPEP2 MUTATED DPEP2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             4             229
  CLUS_3             1              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"

Clustering(293) Variable = TCEAL5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCEAL5 MUTATED        0      0      0      0
  TCEAL5 WILD-TYPE      5      7      5      3
D293V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        0      0      0
  TCEAL5 WILD-TYPE      7      9      4
D293V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCEAL5 MUTATED        1      4      3      5
  TCEAL5 WILD-TYPE     64    206     69    126
D293V3, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4              206
  CLUS_3              3               69
  CLUS_4              5              126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        4      5      3
  TCEAL5 WILD-TYPE    127    133    158
D293V4, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              5              133
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        0      2      2
  TCEAL5 WILD-TYPE     42     69     61
D293V5, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              2               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
  TCEAL5 MUTATED        1      0      1      1      1
  TCEAL5 WILD-TYPE     38     32     42     29     31
D293V6, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        4      4      4
  TCEAL5 WILD-TYPE    146    181    139
D293V7, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              4              146
  CLUS_2              4              181
  CLUS_3              4              139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TCEAL5 MUTATED        3      3      2      1      2      0      1
  TCEAL5 WILD-TYPE     69    106     88     43     47     46     67
D293V8, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              3               69
  CLUS_2              3              106
  CLUS_3              2               88
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              0               46
  CLUS_7              1               67
[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
  TCEAL5 MUTATED        4      6      3
  TCEAL5 WILD-TYPE    171    205     87
D293V9, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              6              205
  CLUS_3              3               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
  TCEAL5 MUTATED        1      4      4      4
  TCEAL5 WILD-TYPE     69    182    127     85
D293V10, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              182
  CLUS_3              4              127
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        5      4      3
  TCEAL5 WILD-TYPE    136    178     86
D293V11, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              5              136
  CLUS_2              4              178
  CLUS_3              3               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
  TCEAL5 MUTATED        2      9      1
  TCEAL5 WILD-TYPE     92    224     84
D293V12, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              2               92
  CLUS_2              9              224
  CLUS_3              1               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"

Clustering(294) Variable = PTPRH MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRH MUTATED        0      0      1      0
  PTPRH WILD-TYPE      5      7      4      3
D294V1, multiclass
[1] "Remove cluster labels:" "PTPRH MUTATED"         
clus
  PTPRH MUTATED PTPRH WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRH MUTATED        1      0      0
  PTPRH WILD-TYPE      6      9      4
D294V2, multiclass
[1] "Remove cluster labels:" "PTPRH MUTATED"         
clus
  PTPRH MUTATED PTPRH WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"PTPRH WILD-TYPE" "PTPRH WILD-TYPE" "PTPRH WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRH MUTATED        4      5      8      5
  PTPRH WILD-TYPE     61    205     64    126
D294V3, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             4              61
  CLUS_2             5             205
  CLUS_3             8              64
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRH MUTATED        3     10      8
  PTPRH WILD-TYPE    128    128    153
D294V4, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             3             128
  CLUS_2            10             128
  CLUS_3             8             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRH MUTATED        0      1      5
  PTPRH WILD-TYPE     42     70     58
D294V5, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             5              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRH MUTATED        1      1      1      3      0
  PTPRH WILD-TYPE     38     31     42     27     32
D294V6, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             3              27
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRH MUTATED        4      9      9
  PTPRH WILD-TYPE    146    176    134
D294V7, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             4             146
  CLUS_2             9             176
  CLUS_3             9             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTPRH MUTATED        0      7      3      1      2      6      3
  PTPRH WILD-TYPE     72    102     87     43     47     40     65
D294V8, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             0              72
  CLUS_2             7             102
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             2              47
  CLUS_6             6              40
  CLUS_7             3              65
[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
  PTPRH MUTATED        5     14      3
  PTPRH WILD-TYPE    170    197     87
D294V9, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             5             170
  CLUS_2            14             197
  CLUS_3             3              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
  PTPRH MUTATED        4     12      2      4
  PTPRH WILD-TYPE     66    174    129     85
D294V10, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             4              66
  CLUS_2            12             174
  CLUS_3             2             129
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRH MUTATED        6     11      2
  PTPRH WILD-TYPE    135    171     87
D294V11, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             6             135
  CLUS_2            11             171
  CLUS_3             2              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
  PTPRH MUTATED        4     13      2
  PTPRH WILD-TYPE     90    220     83
D294V12, multiclass
        clus
vv       PTPRH MUTATED PTPRH WILD-TYPE
  CLUS_1             4              90
  CLUS_2            13             220
  CLUS_3             2              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"

Clustering(295) Variable = LMTK3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LMTK3 MUTATED        0      1      0      0
  LMTK3 WILD-TYPE      5      6      5      3
D295V1, multiclass
[1] "Remove cluster labels:" "LMTK3 MUTATED"         
clus
  LMTK3 MUTATED LMTK3 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        0      1      0
  LMTK3 WILD-TYPE      7      8      4
D295V2, multiclass
[1] "Remove cluster labels:" "LMTK3 MUTATED"         
clus
  LMTK3 MUTATED LMTK3 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LMTK3 MUTATED        0      5      2      1
  LMTK3 WILD-TYPE     65    205     70    130
D295V3, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             5             205
  CLUS_3             2              70
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        3      3      1
  LMTK3 WILD-TYPE    128    135    160
D295V4, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        0      1      1
  LMTK3 WILD-TYPE     42     70     62
D295V5, multiclass
[1] "Remove cluster labels:" "LMTK3 MUTATED"         
clus
  LMTK3 MUTATED LMTK3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-64-5778      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LMTK3 MUTATED        0      1      0      1      0
  LMTK3 WILD-TYPE     39     31     43     29     32
D295V6, multiclass
[1] "Remove cluster labels:" "LMTK3 MUTATED"         
clus
  LMTK3 MUTATED LMTK3 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-64-5778      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"LMTK3 WILD-TYPE" "LMTK3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        1      4      3
  LMTK3 WILD-TYPE    149    181    140
D295V7, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LMTK3 MUTATED        0      1      1      0      1      4      1
  LMTK3 WILD-TYPE     72    108     89     44     48     42     67
D295V8, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             1             108
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             4              42
  CLUS_7             1              67
[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
  LMTK3 MUTATED        2      5      1
  LMTK3 WILD-TYPE    173    206     89
D295V9, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             5             206
  CLUS_3             1              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
  LMTK3 MUTATED        1      5      1      1
  LMTK3 WILD-TYPE     69    181    130     88
D295V10, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             5             181
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LMTK3 MUTATED        2      4      1
  LMTK3 WILD-TYPE    139    178     88
D295V11, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             1              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
  LMTK3 MUTATED        0      6      1
  LMTK3 WILD-TYPE     94    227     84
D295V12, multiclass
        clus
vv       LMTK3 MUTATED LMTK3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             6             227
  CLUS_3             1              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"

Clustering(296) Variable = ADAR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAR MUTATED        0      0      0      0
  ADAR WILD-TYPE      5      7      5      3
D296V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADAR MUTATED        0      0      0
  ADAR WILD-TYPE      7      9      4
D296V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAR MUTATED        2      3      3      1
  ADAR WILD-TYPE     63    207     69    130
D296V3, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            2             63
  CLUS_2            3            207
  CLUS_3            3             69
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADAR MUTATED        2      2      3
  ADAR WILD-TYPE    129    136    158
D296V4, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            2            129
  CLUS_2            2            136
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADAR MUTATED        0      1      2
  ADAR WILD-TYPE     42     70     61
D296V5, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1             70
  CLUS_3            2             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
  ADAR MUTATED        0      0      2      1      0
  ADAR WILD-TYPE     39     32     41     29     32
D296V6, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADAR MUTATED        1      6      2
  ADAR WILD-TYPE    149    179    141
D296V7, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            1            149
  CLUS_2            6            179
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADAR MUTATED        2      3      3      0      1      0      0
  ADAR WILD-TYPE     70    106     87     44     48     46     68
D296V8, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            2             70
  CLUS_2            3            106
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            0             46
  CLUS_7            0             68
[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
  ADAR MUTATED        1      7      1
  ADAR WILD-TYPE    174    204     89
D296V9, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            1            174
  CLUS_2            7            204
  CLUS_3            1             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
  ADAR MUTATED        0      4      1      4
  ADAR WILD-TYPE     70    182    130     85
D296V10, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            182
  CLUS_3            1            130
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ADAR MUTATED        2      3      2
  ADAR WILD-TYPE    139    179     87
D296V11, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            2            139
  CLUS_2            3            179
  CLUS_3            2             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
  ADAR MUTATED        0      7      0
  ADAR WILD-TYPE     94    226     85
D296V12, multiclass
        clus
vv       ADAR MUTATED ADAR WILD-TYPE
  CLUS_1            0             94
  CLUS_2            7            226
  CLUS_3            0             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"

Clustering(297) Variable = CLCN5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLCN5 MUTATED        0      0      0      0
  CLCN5 WILD-TYPE      5      7      5      3
D297V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLCN5 MUTATED        0      0      0
  CLCN5 WILD-TYPE      7      9      4
D297V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CLCN5 MUTATED        1      5      1      2
  CLCN5 WILD-TYPE     64    205     71    129
D297V3, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             1              71
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLCN5 MUTATED        4      4      0
  CLCN5 WILD-TYPE    127    134    161
D297V4, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             4             127
  CLUS_2             4             134
  CLUS_3             0             161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLCN5 MUTATED        2      0      1
  CLCN5 WILD-TYPE     40     71     62
D297V5, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0              71
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CLCN5 MUTATED        0      1      0      0      2
  CLCN5 WILD-TYPE     39     31     43     30     30
D297V6, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             0              43
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLCN5 MUTATED        4      1      4
  CLCN5 WILD-TYPE    146    184    139
D297V7, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             4             146
  CLUS_2             1             184
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CLCN5 MUTATED        2      0      3      2      0      1      1
  CLCN5 WILD-TYPE     70    109     87     42     49     45     67
D297V8, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             0             109
  CLUS_3             3              87
  CLUS_4             2              42
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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
  CLCN5 MUTATED        6      3      0
  CLCN5 WILD-TYPE    169    208     90
D297V9, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             6             169
  CLUS_2             3             208
  CLUS_3             0              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
  CLCN5 MUTATED        1      3      4      1
  CLCN5 WILD-TYPE     69    183    127     88
D297V10, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             183
  CLUS_3             4             127
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CLCN5 MUTATED        1      4      1
  CLCN5 WILD-TYPE    140    178     88
D297V11, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             4             178
  CLUS_3             1              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
  CLCN5 MUTATED        2      4      0
  CLCN5 WILD-TYPE     92    229     85
D297V12, multiclass
        clus
vv       CLCN5 MUTATED CLCN5 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             4             229
  CLUS_3             0              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"

Clustering(298) Variable = MECP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MECP2 MUTATED        0      0      0      0
  MECP2 WILD-TYPE      5      7      5      3
D298V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECP2 MUTATED        0      0      0
  MECP2 WILD-TYPE      7      9      4
D298V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MECP2 MUTATED        0      4      4      1
  MECP2 WILD-TYPE     65    206     68    130
D298V3, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             4              68
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECP2 MUTATED        2      3      2
  MECP2 WILD-TYPE    129    135    159
D298V4, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             3             135
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECP2 MUTATED        1      0      0
  MECP2 WILD-TYPE     41     71     63
D298V5, multiclass
[1] "Remove cluster labels:" "MECP2 MUTATED"         
clus
  MECP2 MUTATED MECP2 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7947      TCGA-95-7948 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-97-7546      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-97-7937      TCGA-97-7938      TCGA-97-7941 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MECP2 MUTATED        0      0      0      0      1
  MECP2 WILD-TYPE     39     32     43     30     31
D298V6, multiclass
[1] "Remove cluster labels:" "MECP2 MUTATED"         
clus
  MECP2 MUTATED MECP2 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7947      TCGA-95-7948 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-97-7546      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
     TCGA-97-7937      TCGA-97-7938      TCGA-97-7941 
"MECP2 WILD-TYPE" "MECP2 WILD-TYPE" "MECP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECP2 MUTATED        3      3      3
  MECP2 WILD-TYPE    147    182    140
D298V7, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             3             182
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MECP2 MUTATED        1      1      4      0      0      1      2
  MECP2 WILD-TYPE     71    108     86     44     49     45     66
D298V8, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             1             108
  CLUS_3             4              86
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             2              66
[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
  MECP2 MUTATED        3      4      1
  MECP2 WILD-TYPE    172    207     89
D298V9, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             4             207
  CLUS_3             1              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
  MECP2 MUTATED        1      1      2      4
  MECP2 WILD-TYPE     69    185    129     85
D298V10, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1             185
  CLUS_3             2             129
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MECP2 MUTATED        2      4      1
  MECP2 WILD-TYPE    139    178     88
D298V11, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             4             178
  CLUS_3             1              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
  MECP2 MUTATED        2      3      2
  MECP2 WILD-TYPE     92    230     83
D298V12, multiclass
        clus
vv       MECP2 MUTATED MECP2 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             3             230
  CLUS_3             2              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"

Clustering(299) Variable = IL22RA2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL22RA2 MUTATED        0      0      0      0
  IL22RA2 WILD-TYPE      5      7      5      3
D299V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL22RA2 MUTATED        0      0      0
  IL22RA2 WILD-TYPE      7      9      4
D299V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL22RA2 MUTATED        1      1      2      2
  IL22RA2 WILD-TYPE     64    209     70    129
D299V3, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               1               209
  CLUS_3               2                70
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL22RA2 MUTATED        1      2      3
  IL22RA2 WILD-TYPE    130    136    158
D299V4, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               2               136
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL22RA2 MUTATED        0      1      0
  IL22RA2 WILD-TYPE     42     70     63
D299V5, multiclass
[1] "Remove cluster labels:" "IL22RA2 MUTATED"       
clus
  IL22RA2 MUTATED IL22RA2 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7043 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IL22RA2 MUTATED        0      0      1      0      0
  IL22RA2 WILD-TYPE     39     32     42     30     32
D299V6, multiclass
[1] "Remove cluster labels:" "IL22RA2 MUTATED"       
clus
  IL22RA2 MUTATED IL22RA2 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7043 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" "IL22RA2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL22RA2 MUTATED        0      5      1
  IL22RA2 WILD-TYPE    150    180    142
D299V7, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               0               150
  CLUS_2               5               180
  CLUS_3               1               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IL22RA2 MUTATED        0      3      2      0      1      0      0
  IL22RA2 WILD-TYPE     72    106     88     44     48     46     68
D299V8, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               0                46
  CLUS_7               0                68
[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
  IL22RA2 MUTATED        0      6      0
  IL22RA2 WILD-TYPE    175    205     90
D299V9, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               0               175
  CLUS_2               6               205
  CLUS_3               0                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
  IL22RA2 MUTATED        0      4      0      2
  IL22RA2 WILD-TYPE     70    182    131     87
D299V10, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               182
  CLUS_3               0               131
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  IL22RA2 MUTATED        1      2      3
  IL22RA2 WILD-TYPE    140    180     86
D299V11, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               2               180
  CLUS_3               3                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
  IL22RA2 MUTATED        0      6      0
  IL22RA2 WILD-TYPE     94    227     85
D299V12, multiclass
        clus
vv       IL22RA2 MUTATED IL22RA2 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               6               227
  CLUS_3               0                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"

Clustering(300) Variable = MYO1H MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1H MUTATED        0      1      0      0
  MYO1H WILD-TYPE      5      6      5      3
D300V1, multiclass
[1] "Remove cluster labels:" "MYO1H MUTATED"         
clus
  MYO1H MUTATED MYO1H WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1H MUTATED        0      1      0
  MYO1H WILD-TYPE      7      8      4
D300V2, multiclass
[1] "Remove cluster labels:" "MYO1H MUTATED"         
clus
  MYO1H MUTATED MYO1H WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4250      TCGA-35-4122      TCGA-35-4123 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"MYO1H WILD-TYPE" "MYO1H WILD-TYPE" "MYO1H WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1H MUTATED        1      4      5      2
  MYO1H WILD-TYPE     64    206     67    129
D300V3, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             1              64
  CLUS_2             4             206
  CLUS_3             5              67
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1H MUTATED        2      4      3
  MYO1H WILD-TYPE    129    134    158
D300V4, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             2             129
  CLUS_2             4             134
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1H MUTATED        2      3      0
  MYO1H WILD-TYPE     40     68     63
D300V5, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3              68
  CLUS_3             0              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 CLUS_4 CLUS_5
  MYO1H MUTATED        2      1      2      0      0
  MYO1H WILD-TYPE     37     31     41     30     32
D300V6, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             2              37
  CLUS_2             1              31
  CLUS_3             2              41
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1H MUTATED        1      6      5
  MYO1H WILD-TYPE    149    179    138
D300V7, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             1             149
  CLUS_2             6             179
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MYO1H MUTATED        1      4      1      1      1      4      0
  MYO1H WILD-TYPE     71    105     89     43     48     42     68
D300V8, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             1              71
  CLUS_2             4             105
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             4              42
  CLUS_7             0              68
[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
  MYO1H MUTATED        3      7      1
  MYO1H WILD-TYPE    172    204     89
D300V9, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             1              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
  MYO1H MUTATED        2      6      1      2
  MYO1H WILD-TYPE     68    180    130     87
D300V10, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             2              68
  CLUS_2             6             180
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1H MUTATED        3      5      1
  MYO1H WILD-TYPE    138    177     88
D300V11, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             3             138
  CLUS_2             5             177
  CLUS_3             1              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
  MYO1H MUTATED        1      7      1
  MYO1H WILD-TYPE     93    226     84
D300V12, multiclass
        clus
vv       MYO1H MUTATED MYO1H WILD-TYPE
  CLUS_1             1              93
  CLUS_2             7             226
  CLUS_3             1              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"

Clustering(301) Variable = SERGEF MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERGEF MUTATED        0      0      0      0
  SERGEF WILD-TYPE      5      7      5      3
D301V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SERGEF MUTATED        0      0      0
  SERGEF WILD-TYPE      7      9      4
D301V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SERGEF MUTATED        0      2      1      6
  SERGEF WILD-TYPE     65    208     71    125
D301V3, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              0               65
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              6              125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SERGEF MUTATED        1      2      6
  SERGEF WILD-TYPE    130    136    155
D301V4, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              1              130
  CLUS_2              2              136
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SERGEF MUTATED        2      0      0
  SERGEF WILD-TYPE     40     71     63
D301V5, multiclass
[1] "Remove cluster labels:" "SERGEF MUTATED"        
clus
  SERGEF MUTATED SERGEF WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7162       TCGA-78-7163 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SERGEF MUTATED        0      1      0      1      0
  SERGEF WILD-TYPE     39     31     43     29     32
D301V6, multiclass
[1] "Remove cluster labels:" "SERGEF MUTATED"        
clus
  SERGEF MUTATED SERGEF WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7162       TCGA-78-7163 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"SERGEF WILD-TYPE" "SERGEF WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SERGEF MUTATED        3      4      2
  SERGEF WILD-TYPE    147    181    141
D301V7, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              3              147
  CLUS_2              4              181
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SERGEF MUTATED        1      4      1      0      1      1      1
  SERGEF WILD-TYPE     71    105     89     44     48     45     67
D301V8, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              1               71
  CLUS_2              4              105
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              1               45
  CLUS_7              1               67
[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
  SERGEF MUTATED        2      5      2
  SERGEF WILD-TYPE    173    206     88
D301V9, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              2              173
  CLUS_2              5              206
  CLUS_3              2               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
  SERGEF MUTATED        0      4      3      2
  SERGEF WILD-TYPE     70    182    128     87
D301V10, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              182
  CLUS_3              3              128
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SERGEF MUTATED        3      6      0
  SERGEF WILD-TYPE    138    176     89
D301V11, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              3              138
  CLUS_2              6              176
  CLUS_3              0               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
  SERGEF MUTATED        3      6      0
  SERGEF WILD-TYPE     91    227     85
D301V12, multiclass
        clus
vv       SERGEF MUTATED SERGEF WILD-TYPE
  CLUS_1              3               91
  CLUS_2              6              227
  CLUS_3              0               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"

Clustering(302) Variable = TRIP13 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIP13 MUTATED        0      0      0      0
  TRIP13 WILD-TYPE      5      7      5      3
D302V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP13 MUTATED        0      0      0
  TRIP13 WILD-TYPE      7      9      4
D302V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIP13 MUTATED        1      5      1      4
  TRIP13 WILD-TYPE     64    205     71    127
D302V3, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              5              205
  CLUS_3              1               71
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP13 MUTATED        3      2      5
  TRIP13 WILD-TYPE    128    136    156
D302V4, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              2              136
  CLUS_3              5              156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP13 MUTATED        1      2      4
  TRIP13 WILD-TYPE     41     69     59
D302V5, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2               69
  CLUS_3              4               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 CLUS_4 CLUS_5
  TRIP13 MUTATED        1      1      1      2      2
  TRIP13 WILD-TYPE     38     31     42     28     30
D302V6, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              2               28
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP13 MUTATED        2      6      3
  TRIP13 WILD-TYPE    148    179    140
D302V7, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              6              179
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TRIP13 MUTATED        1      5      1      1      0      2      1
  TRIP13 WILD-TYPE     71    104     89     43     49     44     67
D302V8, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              5              104
  CLUS_3              1               89
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              1               67
[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
  TRIP13 MUTATED        3      4      4
  TRIP13 WILD-TYPE    172    207     86
D302V9, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              3              172
  CLUS_2              4              207
  CLUS_3              4               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
  TRIP13 MUTATED        1      6      3      1
  TRIP13 WILD-TYPE     69    180    128     88
D302V10, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              6              180
  CLUS_3              3              128
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRIP13 MUTATED        4      3      3
  TRIP13 WILD-TYPE    137    179     86
D302V11, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              3              179
  CLUS_3              3               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
  TRIP13 MUTATED        0      7      3
  TRIP13 WILD-TYPE     94    226     82
D302V12, multiclass
        clus
vv       TRIP13 MUTATED TRIP13 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              7              226
  CLUS_3              3               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"

Clustering(303) Variable = GPR174 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR174 MUTATED        0      0      0      0
  GPR174 WILD-TYPE      5      7      5      3
D303V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        0      0      0
  GPR174 WILD-TYPE      7      9      4
D303V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR174 MUTATED        1      4      4      7
  GPR174 WILD-TYPE     64    206     68    124
D303V3, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4              206
  CLUS_3              4               68
  CLUS_4              7              124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        2      6      7
  GPR174 WILD-TYPE    129    132    154
D303V4, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              6              132
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        2      3      2
  GPR174 WILD-TYPE     40     68     61
D303V5, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              3               68
  CLUS_3              2               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
  GPR174 MUTATED        2      0      3      0      2
  GPR174 WILD-TYPE     37     32     40     30     30
D303V6, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              0               32
  CLUS_3              3               40
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        4      9      3
  GPR174 WILD-TYPE    146    176    140
D303V7, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              4              146
  CLUS_2              9              176
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GPR174 MUTATED        2      4      7      1      1      0      1
  GPR174 WILD-TYPE     70    105     83     43     48     46     67
D303V8, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               70
  CLUS_2              4              105
  CLUS_3              7               83
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              1               67
[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
  GPR174 MUTATED        3     11      2
  GPR174 WILD-TYPE    172    200     88
D303V9, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              3              172
  CLUS_2             11              200
  CLUS_3              2               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
  GPR174 MUTATED        0      5      4      7
  GPR174 WILD-TYPE     70    181    127     82
D303V10, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              181
  CLUS_3              4              127
  CLUS_4              7               82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR174 MUTATED        5     10      0
  GPR174 WILD-TYPE    136    172     89
D303V11, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              5              136
  CLUS_2             10              172
  CLUS_3              0               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
  GPR174 MUTATED        2     11      2
  GPR174 WILD-TYPE     92    222     83
D303V12, multiclass
        clus
vv       GPR174 MUTATED GPR174 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             11              222
  CLUS_3              2               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"

Clustering(304) Variable = VARS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VARS MUTATED        0      0      0      0
  VARS WILD-TYPE      5      7      5      3
D304V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VARS MUTATED        0      0      0
  VARS WILD-TYPE      7      9      4
D304V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VARS MUTATED        0      3      1      5
  VARS WILD-TYPE     65    207     71    126
D304V3, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            0             65
  CLUS_2            3            207
  CLUS_3            1             71
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VARS MUTATED        1      4      2
  VARS WILD-TYPE    130    134    159
D304V4, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            1            130
  CLUS_2            4            134
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VARS MUTATED        1      4      2
  VARS WILD-TYPE     41     67     61
D304V5, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            1             41
  CLUS_2            4             67
  CLUS_3            2             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
  VARS MUTATED        2      1      3      1      0
  VARS WILD-TYPE     37     31     40     29     32
D304V6, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            2             37
  CLUS_2            1             31
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VARS MUTATED        0      5      4
  VARS WILD-TYPE    150    180    139
D304V7, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            0            150
  CLUS_2            5            180
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  VARS MUTATED        0      3      2      1      1      2      0
  VARS WILD-TYPE     72    106     88     43     48     44     68
D304V8, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            0             72
  CLUS_2            3            106
  CLUS_3            2             88
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            0             68
[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
  VARS MUTATED        3      5      1
  VARS WILD-TYPE    172    206     89
D304V9, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            3            172
  CLUS_2            5            206
  CLUS_3            1             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
  VARS MUTATED        1      3      1      4
  VARS WILD-TYPE     69    183    130     85
D304V10, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            1            130
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VARS MUTATED        2      4      1
  VARS WILD-TYPE    139    178     88
D304V11, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            2            139
  CLUS_2            4            178
  CLUS_3            1             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
  VARS MUTATED        1      6      0
  VARS WILD-TYPE     93    227     85
D304V12, multiclass
        clus
vv       VARS MUTATED VARS WILD-TYPE
  CLUS_1            1             93
  CLUS_2            6            227
  CLUS_3            0             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"

Clustering(305) Variable = CSNK1E MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSNK1E MUTATED        0      1      0      0
  CSNK1E WILD-TYPE      5      6      5      3
D305V1, multiclass
[1] "Remove cluster labels:" "CSNK1E MUTATED"        
clus
  CSNK1E MUTATED CSNK1E WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1E MUTATED        0      1      0
  CSNK1E WILD-TYPE      7      8      4
D305V2, multiclass
[1] "Remove cluster labels:" "CSNK1E MUTATED"        
clus
  CSNK1E MUTATED CSNK1E WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" "CSNK1E WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSNK1E MUTATED        1      2      0      3
  CSNK1E WILD-TYPE     64    208     72    128
D305V3, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              1               64
  CLUS_2              2              208
  CLUS_3              0               72
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1E MUTATED        0      0      6
  CSNK1E WILD-TYPE    131    138    155
D305V4, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0              131
  CLUS_2              0              138
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1E MUTATED        0      2      1
  CSNK1E WILD-TYPE     42     69     62
D305V5, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CSNK1E MUTATED        1      0      1      0      1
  CSNK1E WILD-TYPE     38     32     42     30     31
D305V6, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1E MUTATED        0      6      0
  CSNK1E WILD-TYPE    150    179    143
D305V7, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0              150
  CLUS_2              6              179
  CLUS_3              0              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CSNK1E MUTATED        0      4      2      0      0      0      0
  CSNK1E WILD-TYPE     72    105     88     44     49     46     68
D305V8, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0               72
  CLUS_2              4              105
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              0               46
  CLUS_7              0               68
[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
  CSNK1E MUTATED        1      4      1
  CSNK1E WILD-TYPE    174    207     89
D305V9, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              1              174
  CLUS_2              4              207
  CLUS_3              1               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
  CSNK1E MUTATED        0      4      1      1
  CSNK1E WILD-TYPE     70    182    130     88
D305V10, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0               70
  CLUS_2              4              182
  CLUS_3              1              130
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CSNK1E MUTATED        0      4      1
  CSNK1E WILD-TYPE    141    178     88
D305V11, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0              141
  CLUS_2              4              178
  CLUS_3              1               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
  CSNK1E MUTATED        0      4      1
  CSNK1E WILD-TYPE     94    229     84
D305V12, multiclass
        clus
vv       CSNK1E MUTATED CSNK1E WILD-TYPE
  CLUS_1              0               94
  CLUS_2              4              229
  CLUS_3              1               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"

Clustering(306) Variable = ANKRD7 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD7 MUTATED        0      0      0      0
  ANKRD7 WILD-TYPE      5      7      5      3
D306V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKRD7 MUTATED        0      0      0
  ANKRD7 WILD-TYPE      7      9      4
D306V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANKRD7 MUTATED        2      3      2      3
  ANKRD7 WILD-TYPE     63    207     70    128
D306V3, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKRD7 MUTATED        0      6      2
  ANKRD7 WILD-TYPE    131    132    159
D306V4, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              6              132
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKRD7 MUTATED        0      2      3
  ANKRD7 WILD-TYPE     42     69     60
D306V5, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              3               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
  ANKRD7 MUTATED        1      0      2      1      1
  ANKRD7 WILD-TYPE     38     32     41     29     31
D306V6, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              1               29
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKRD7 MUTATED        1      7      2
  ANKRD7 WILD-TYPE    149    178    141
D306V7, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              7              178
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ANKRD7 MUTATED        0      3      4      1      0      2      0
  ANKRD7 WILD-TYPE     72    106     86     43     49     44     68
D306V8, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              4               86
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              0               68
[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
  ANKRD7 MUTATED        0      7      2
  ANKRD7 WILD-TYPE    175    204     88
D306V9, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              0              175
  CLUS_2              7              204
  CLUS_3              2               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
  ANKRD7 MUTATED        0      5      0      4
  ANKRD7 WILD-TYPE     70    181    131     85
D306V10, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              5              181
  CLUS_3              0              131
  CLUS_4              4               85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANKRD7 MUTATED        2      4      2
  ANKRD7 WILD-TYPE    139    178     87
D306V11, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              4              178
  CLUS_3              2               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
  ANKRD7 MUTATED        1      6      1
  ANKRD7 WILD-TYPE     93    227     84
D306V12, multiclass
        clus
vv       ANKRD7 MUTATED ANKRD7 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              6              227
  CLUS_3              1               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"

Clustering(307) Variable = SLC34A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC34A1 MUTATED        0      0      0      0
  SLC34A1 WILD-TYPE      5      7      5      3
D307V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A1 MUTATED        0      0      0
  SLC34A1 WILD-TYPE      7      9      4
D307V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC34A1 MUTATED        0      2      2      6
  SLC34A1 WILD-TYPE     65    208     70    125
D307V3, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               2               208
  CLUS_3               2                70
  CLUS_4               6               125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A1 MUTATED        1      3      6
  SLC34A1 WILD-TYPE    130    135    155
D307V4, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               3               135
  CLUS_3               6               155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A1 MUTATED        1      1      3
  SLC34A1 WILD-TYPE     41     70     60
D307V5, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               1                70
  CLUS_3               3                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
  SLC34A1 MUTATED        0      2      2      0      1
  SLC34A1 WILD-TYPE     39     30     41     30     31
D307V6, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               2                30
  CLUS_3               2                41
  CLUS_4               0                30
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A1 MUTATED        2      4      4
  SLC34A1 WILD-TYPE    148    181    139
D307V7, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               4               181
  CLUS_3               4               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC34A1 MUTATED        0      4      2      1      2      0      1
  SLC34A1 WILD-TYPE     72    105     88     43     47     46     67
D307V8, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               4               105
  CLUS_3               2                88
  CLUS_4               1                43
  CLUS_5               2                47
  CLUS_6               0                46
  CLUS_7               1                67
[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
  SLC34A1 MUTATED        3      5      2
  SLC34A1 WILD-TYPE    172    206     88
D307V9, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               3               172
  CLUS_2               5               206
  CLUS_3               2                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
  SLC34A1 MUTATED        1      8      1      0
  SLC34A1 WILD-TYPE     69    178    130     89
D307V10, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               8               178
  CLUS_3               1               130
  CLUS_4               0                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC34A1 MUTATED        2      5      3
  SLC34A1 WILD-TYPE    139    177     86
D307V11, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               5               177
  CLUS_3               3                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
  SLC34A1 MUTATED        1      5      4
  SLC34A1 WILD-TYPE     93    228     81
D307V12, multiclass
        clus
vv       SLC34A1 MUTATED SLC34A1 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               5               228
  CLUS_3               4                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"

Clustering(308) Variable = MSN MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSN MUTATED        0      0      0      0
  MSN WILD-TYPE      5      7      5      3
D308V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MSN MUTATED        0      0      0
  MSN WILD-TYPE      7      9      4
D308V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSN MUTATED        1      3      1      3
  MSN WILD-TYPE     64    207     71    128
D308V3, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           1            64
  CLUS_2           3           207
  CLUS_3           1            71
  CLUS_4           3           128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MSN MUTATED        1      3      4
  MSN WILD-TYPE    130    135    157
D308V4, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           1           130
  CLUS_2           3           135
  CLUS_3           4           157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MSN MUTATED        0      1      2
  MSN WILD-TYPE     42     70     61
D308V5, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1            70
  CLUS_3           2            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
  MSN MUTATED        0      0      1      1      1
  MSN WILD-TYPE     39     32     42     29     31
D308V6, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            39
  CLUS_2           0            32
  CLUS_3           1            42
  CLUS_4           1            29
  CLUS_5           1            31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MSN MUTATED        0      5      3
  MSN WILD-TYPE    150    180    140
D308V7, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0           150
  CLUS_2           5           180
  CLUS_3           3           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MSN MUTATED        0      4      2      0      1      1      0
  MSN WILD-TYPE     72    105     88     44     48     45     68
D308V8, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            72
  CLUS_2           4           105
  CLUS_3           2            88
  CLUS_4           0            44
  CLUS_5           1            48
  CLUS_6           1            45
  CLUS_7           0            68
[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
  MSN MUTATED        2      6      0
  MSN WILD-TYPE    173    205     90
D308V9, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           2           173
  CLUS_2           6           205
  CLUS_3           0            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
  MSN MUTATED        2      3      0      3
  MSN WILD-TYPE     68    183    131     86
D308V10, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           2            68
  CLUS_2           3           183
  CLUS_3           0           131
  CLUS_4           3            86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MSN MUTATED        2      4      2
  MSN WILD-TYPE    139    178     87
D308V11, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           2           139
  CLUS_2           4           178
  CLUS_3           2            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
  MSN MUTATED        0      6      2
  MSN WILD-TYPE     94    227     83
D308V12, multiclass
        clus
vv       MSN MUTATED MSN WILD-TYPE
  CLUS_1           0            94
  CLUS_2           6           227
  CLUS_3           2            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"

Clustering(309) Variable = FXYD5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FXYD5 MUTATED        0      1      0      0
  FXYD5 WILD-TYPE      5      6      5      3
D309V1, multiclass
[1] "Remove cluster labels:" "FXYD5 MUTATED"         
clus
  FXYD5 MUTATED FXYD5 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-35-4122      TCGA-35-4123 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FXYD5 MUTATED        0      1      0
  FXYD5 WILD-TYPE      7      8      4
D309V2, multiclass
[1] "Remove cluster labels:" "FXYD5 MUTATED"         
clus
  FXYD5 MUTATED FXYD5 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-35-4122      TCGA-35-4123 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FXYD5 MUTATED        0      4      1      1
  FXYD5 WILD-TYPE     65    206     71    130
D309V3, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             1              71
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FXYD5 MUTATED        0      2      3
  FXYD5 WILD-TYPE    131    136    158
D309V4, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FXYD5 MUTATED        1      0      1
  FXYD5 WILD-TYPE     41     71     62
D309V5, multiclass
[1] "Remove cluster labels:" "FXYD5 MUTATED"         
clus
  FXYD5 MUTATED FXYD5 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-71-6725      TCGA-73-4658 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FXYD5 MUTATED        0      1      0      0      1
  FXYD5 WILD-TYPE     39     31     43     30     31
D309V6, multiclass
[1] "Remove cluster labels:" "FXYD5 MUTATED"         
clus
  FXYD5 MUTATED FXYD5 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-71-6725      TCGA-73-4658 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"FXYD5 WILD-TYPE" "FXYD5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FXYD5 MUTATED        1      4      1
  FXYD5 WILD-TYPE    149    181    142
D309V7, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             4             181
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FXYD5 MUTATED        0      4      1      1      0      0      0
  FXYD5 WILD-TYPE     72    105     89     43     49     46     68
D309V8, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             0              68
[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
  FXYD5 MUTATED        4      1      1
  FXYD5 WILD-TYPE    171    210     89
D309V9, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             4             171
  CLUS_2             1             210
  CLUS_3             1              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
  FXYD5 MUTATED        2      2      1      1
  FXYD5 WILD-TYPE     68    184    130     88
D309V10, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             184
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FXYD5 MUTATED        2      2      1
  FXYD5 WILD-TYPE    139    180     88
D309V11, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             2             180
  CLUS_3             1              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
  FXYD5 MUTATED        1      3      1
  FXYD5 WILD-TYPE     93    230     84
D309V12, multiclass
        clus
vv       FXYD5 MUTATED FXYD5 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(310) Variable = NXF5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NXF5 MUTATED        0      1      0      0
  NXF5 WILD-TYPE      5      6      5      3
D310V1, multiclass
[1] "Remove cluster labels:" "NXF5 MUTATED"          
clus
  NXF5 MUTATED NXF5 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF5 MUTATED        0      1      0
  NXF5 WILD-TYPE      7      8      4
D310V2, multiclass
[1] "Remove cluster labels:" "NXF5 MUTATED"          
clus
  NXF5 MUTATED NXF5 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"NXF5 WILD-TYPE" "NXF5 WILD-TYPE" "NXF5 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NXF5 MUTATED        2      6      1      4
  NXF5 WILD-TYPE     63    204     71    127
D310V3, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            6            204
  CLUS_3            1             71
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF5 MUTATED        3      2      5
  NXF5 WILD-TYPE    128    136    156
D310V4, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            3            128
  CLUS_2            2            136
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF5 MUTATED        2      3      2
  NXF5 WILD-TYPE     40     68     61
D310V5, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            3             68
  CLUS_3            2             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
  NXF5 MUTATED        2      0      2      1      2
  NXF5 WILD-TYPE     37     32     41     29     30
D310V6, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            2             37
  CLUS_2            0             32
  CLUS_3            2             41
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF5 MUTATED        5      5      3
  NXF5 WILD-TYPE    145    180    140
D310V7, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            5            145
  CLUS_2            5            180
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NXF5 MUTATED        3      3      3      0      2      0      2
  NXF5 WILD-TYPE     69    106     87     44     47     46     66
D310V8, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            3             69
  CLUS_2            3            106
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            2             47
  CLUS_6            0             46
  CLUS_7            2             66
[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
  NXF5 MUTATED        7      6      0
  NXF5 WILD-TYPE    168    205     90
D310V9, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            7            168
  CLUS_2            6            205
  CLUS_3            0             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
  NXF5 MUTATED        1      4      5      3
  NXF5 WILD-TYPE     69    182    126     86
D310V10, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            182
  CLUS_3            5            126
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NXF5 MUTATED        4      5      1
  NXF5 WILD-TYPE    137    177     88
D310V11, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            4            137
  CLUS_2            5            177
  CLUS_3            1             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
  NXF5 MUTATED        1      7      2
  NXF5 WILD-TYPE     93    226     83
D310V12, multiclass
        clus
vv       NXF5 MUTATED NXF5 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            7            226
  CLUS_3            2             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"

Clustering(311) Variable = CDK16 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK16 MUTATED        0      0      0      0
  CDK16 WILD-TYPE      5      7      5      3
D311V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK16 MUTATED        0      0      0
  CDK16 WILD-TYPE      7      9      4
D311V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK16 MUTATED        0      4      0      1
  CDK16 WILD-TYPE     65    206     72    130
D311V3, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             0              72
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK16 MUTATED        2      2      1
  CDK16 WILD-TYPE    129    136    160
D311V4, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK16 MUTATED        2      0      0
  CDK16 WILD-TYPE     40     71     63
D311V5, multiclass
[1] "Remove cluster labels:" "CDK16 MUTATED"         
clus
  CDK16 MUTATED CDK16 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7948      TCGA-97-7552 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDK16 MUTATED        0      0      0      1      1
  CDK16 WILD-TYPE     39     32     43     29     31
D311V6, multiclass
[1] "Remove cluster labels:" "CDK16 MUTATED"         
clus
  CDK16 MUTATED CDK16 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7039 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7567      TCGA-95-7948      TCGA-97-7552 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"CDK16 WILD-TYPE" "CDK16 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK16 MUTATED        2      2      1
  CDK16 WILD-TYPE    148    183    142
D311V7, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             2             148
  CLUS_2             2             183
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDK16 MUTATED        1      1      2      0      1      0      0
  CDK16 WILD-TYPE     71    108     88     44     48     46     68
D311V8, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             1             108
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             0              68
[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
  CDK16 MUTATED        2      1      2
  CDK16 WILD-TYPE    173    210     88
D311V9, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             1             210
  CLUS_3             2              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
  CDK16 MUTATED        0      1      2      2
  CDK16 WILD-TYPE     70    185    129     87
D311V10, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             185
  CLUS_3             2             129
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK16 MUTATED        1      3      1
  CDK16 WILD-TYPE    140    179     88
D311V11, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             3             179
  CLUS_3             1              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
  CDK16 MUTATED        1      3      1
  CDK16 WILD-TYPE     93    230     84
D311V12, multiclass
        clus
vv       CDK16 MUTATED CDK16 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(312) Variable = COL19A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL19A1 MUTATED        0      0      0      1
  COL19A1 WILD-TYPE      5      7      5      2
D312V1, multiclass
[1] "Remove cluster labels:" "COL19A1 MUTATED"       
clus
  COL19A1 MUTATED COL19A1 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-55-1595        TCGA-64-1676 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL19A1 MUTATED        0      0      1
  COL19A1 WILD-TYPE      7      9      3
D312V2, multiclass
[1] "Remove cluster labels:" "COL19A1 MUTATED"       
clus
  COL19A1 MUTATED COL19A1 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3918        TCGA-44-3919 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-44-4112        TCGA-55-1592        TCGA-55-1595        TCGA-64-1676 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" "COL19A1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL19A1 MUTATED        6     12      7     14
  COL19A1 WILD-TYPE     59    198     65    117
D312V3, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               6                59
  CLUS_2              12               198
  CLUS_3               7                65
  CLUS_4              14               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL19A1 MUTATED        3     18     16
  COL19A1 WILD-TYPE    128    120    145
D312V4, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               3               128
  CLUS_2              18               120
  CLUS_3              16               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL19A1 MUTATED        0      5      7
  COL19A1 WILD-TYPE     42     66     56
D312V5, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               0                42
  CLUS_2               5                66
  CLUS_3               7                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 CLUS_4 CLUS_5
  COL19A1 MUTATED        1      1      5      4      1
  COL19A1 WILD-TYPE     38     31     38     26     31
D312V6, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               1                31
  CLUS_3               5                38
  CLUS_4               4                26
  CLUS_5               1                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL19A1 MUTATED        6     21     12
  COL19A1 WILD-TYPE    144    164    131
D312V7, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               6               144
  CLUS_2              21               164
  CLUS_3              12               131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL19A1 MUTATED        2     10     13      1      6      4      3
  COL19A1 WILD-TYPE     70     99     77     43     43     42     65
D312V8, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               2                70
  CLUS_2              10                99
  CLUS_3              13                77
  CLUS_4               1                43
  CLUS_5               6                43
  CLUS_6               4                42
  CLUS_7               3                65
[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
  COL19A1 MUTATED        6     27      6
  COL19A1 WILD-TYPE    169    184     84
D312V9, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               6               169
  CLUS_2              27               184
  CLUS_3               6                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
  COL19A1 MUTATED        5     16      3     15
  COL19A1 WILD-TYPE     65    170    128     74
D312V10, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               5                65
  CLUS_2              16               170
  CLUS_3               3               128
  CLUS_4              15                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  COL19A1 MUTATED       10     20      7
  COL19A1 WILD-TYPE    131    162     82
D312V11, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1              10               131
  CLUS_2              20               162
  CLUS_3               7                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
  COL19A1 MUTATED        2     29      6
  COL19A1 WILD-TYPE     92    204     79
D312V12, multiclass
        clus
vv       COL19A1 MUTATED COL19A1 WILD-TYPE
  CLUS_1               2                92
  CLUS_2              29               204
  CLUS_3               6                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"

Clustering(313) Variable = PTPRN MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRN MUTATED        0      0      0      0
  PTPRN WILD-TYPE      5      7      5      3
D313V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        0      0      0
  PTPRN WILD-TYPE      7      9      4
D313V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTPRN MUTATED        4      4      5      5
  PTPRN WILD-TYPE     61    206     67    126
D313V3, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             4              61
  CLUS_2             4             206
  CLUS_3             5              67
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        3      9      6
  PTPRN WILD-TYPE    128    129    155
D313V4, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             3             128
  CLUS_2             9             129
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        2      2      3
  PTPRN WILD-TYPE     40     69     60
D313V5, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             2              40
  CLUS_2             2              69
  CLUS_3             3              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
  PTPRN MUTATED        0      1      4      0      2
  PTPRN WILD-TYPE     39     31     39     30     30
D313V6, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             4              39
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        2      9      7
  PTPRN WILD-TYPE    148    176    136
D313V7, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             2             148
  CLUS_2             9             176
  CLUS_3             7             136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTPRN MUTATED        0      4      6      1      3      1      3
  PTPRN WILD-TYPE     72    105     84     43     46     45     65
D313V8, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             6              84
  CLUS_4             1              43
  CLUS_5             3              46
  CLUS_6             1              45
  CLUS_7             3              65
[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
  PTPRN MUTATED        4     12      2
  PTPRN WILD-TYPE    171    199     88
D313V9, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             4             171
  CLUS_2            12             199
  CLUS_3             2              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
  PTPRN MUTATED        3      8      3      4
  PTPRN WILD-TYPE     67    178    128     85
D313V10, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             3              67
  CLUS_2             8             178
  CLUS_3             3             128
  CLUS_4             4              85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRN MUTATED        7      9      2
  PTPRN WILD-TYPE    134    173     87
D313V11, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             7             134
  CLUS_2             9             173
  CLUS_3             2              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
  PTPRN MUTATED        3     10      5
  PTPRN WILD-TYPE     91    223     80
D313V12, multiclass
        clus
vv       PTPRN MUTATED PTPRN WILD-TYPE
  CLUS_1             3              91
  CLUS_2            10             223
  CLUS_3             5              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"

Clustering(314) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        0      0      0      0
  FBXW7 WILD-TYPE      5      7      5      3
D314V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        0      0      0
  FBXW7 WILD-TYPE      7      9      4
D314V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        1      5      3      3
  FBXW7 WILD-TYPE     64    205     69    128
D314V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             3              69
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      6
  FBXW7 WILD-TYPE    129    135    155
D314V4, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             3             135
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        0      2      0
  FBXW7 WILD-TYPE     42     69     63
D314V5, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4402 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-05-4405      TCGA-05-4410      TCGA-05-4417      TCGA-05-4418 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7043      TCGA-95-7567 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED        0      0      2      0      0
  FBXW7 WILD-TYPE     39     32     41     30     32
D314V6, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4402 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-05-4405      TCGA-05-4410      TCGA-05-4417      TCGA-05-4418 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7043      TCGA-95-7567 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        3      6      3
  FBXW7 WILD-TYPE    147    179    140
D314V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             6             179
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FBXW7 MUTATED        2      5      2      1      0      1      1
  FBXW7 WILD-TYPE     70    104     88     43     49     45     67
D314V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             5             104
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             1              67
[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        3      7      2
  FBXW7 WILD-TYPE    172    204     88
D314V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             2              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
  FBXW7 MUTATED        0      7      2      3
  FBXW7 WILD-TYPE     70    179    129     86
D314V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             7             179
  CLUS_3             2             129
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      3      3
  FBXW7 WILD-TYPE    137    179     86
D314V11, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             4             137
  CLUS_2             3             179
  CLUS_3             3              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
  FBXW7 MUTATED        0      6      4
  FBXW7 WILD-TYPE     94    227     81
D314V12, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             6             227
  CLUS_3             4              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"

Clustering(315) Variable = SYTL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYTL1 MUTATED        0      0      0      0
  SYTL1 WILD-TYPE      5      7      5      3
D315V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYTL1 MUTATED        0      0      0
  SYTL1 WILD-TYPE      7      9      4
D315V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SYTL1 MUTATED        1      0      2      2
  SYTL1 WILD-TYPE     64    210     70    129
D315V3, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             0             210
  CLUS_3             2              70
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYTL1 MUTATED        0      0      4
  SYTL1 WILD-TYPE    131    138    157
D315V4, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             0             138
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYTL1 MUTATED        0      1      0
  SYTL1 WILD-TYPE     42     70     63
D315V5, multiclass
[1] "Remove cluster labels:" "SYTL1 MUTATED"         
clus
  SYTL1 MUTATED SYTL1 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7043 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SYTL1 MUTATED        0      0      1      0      0
  SYTL1 WILD-TYPE     39     32     42     30     32
D315V6, multiclass
[1] "Remove cluster labels:" "SYTL1 MUTATED"         
clus
  SYTL1 MUTATED SYTL1 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6847 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-93-7348      TCGA-95-7043 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" "SYTL1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYTL1 MUTATED        0      4      1
  SYTL1 WILD-TYPE    150    181    142
D315V7, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             4             181
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SYTL1 MUTATED        0      2      1      0      0      2      0
  SYTL1 WILD-TYPE     72    107     89     44     49     44     68
D315V8, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             2              44
  CLUS_7             0              68
[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
  SYTL1 MUTATED        0      5      0
  SYTL1 WILD-TYPE    175    206     90
D315V9, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             5             206
  CLUS_3             0              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
  SYTL1 MUTATED        0      4      0      1
  SYTL1 WILD-TYPE     70    182    131     88
D315V10, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SYTL1 MUTATED        0      1      2
  SYTL1 WILD-TYPE    141    181     87
D315V11, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             1             181
  CLUS_3             2              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
  SYTL1 MUTATED        0      3      0
  SYTL1 WILD-TYPE     94    230     85
D315V12, multiclass
        clus
vv       SYTL1 MUTATED SYTL1 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             3             230
  CLUS_3             0              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"

Clustering(316) Variable = PIK3C2B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3C2B MUTATED        0      1      0      0
  PIK3C2B WILD-TYPE      5      6      5      3
D316V1, multiclass
[1] "Remove cluster labels:" "PIK3C2B MUTATED"       
clus
  PIK3C2B MUTATED PIK3C2B WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-35-4122        TCGA-35-4123 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2B MUTATED        0      1      0
  PIK3C2B WILD-TYPE      7      8      4
D316V2, multiclass
[1] "Remove cluster labels:" "PIK3C2B MUTATED"       
clus
  PIK3C2B MUTATED PIK3C2B WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-35-4122        TCGA-35-4123 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-44-3398        TCGA-44-3918        TCGA-44-3919        TCGA-44-4112 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" "PIK3C2B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3C2B MUTATED        4      3      5      7
  PIK3C2B WILD-TYPE     61    207     67    124
D316V3, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               4                61
  CLUS_2               3               207
  CLUS_3               5                67
  CLUS_4               7               124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2B MUTATED        5      2     10
  PIK3C2B WILD-TYPE    126    136    151
D316V4, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               5               126
  CLUS_2               2               136
  CLUS_3              10               151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2B MUTATED        0      3      3
  PIK3C2B WILD-TYPE     42     68     60
D316V5, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3                68
  CLUS_3               3                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
  PIK3C2B MUTATED        2      1      3      0      0
  PIK3C2B WILD-TYPE     37     31     40     30     32
D316V6, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               2                37
  CLUS_2               1                31
  CLUS_3               3                40
  CLUS_4               0                30
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2B MUTATED        4     12      3
  PIK3C2B WILD-TYPE    146    173    140
D316V7, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               4               146
  CLUS_2              12               173
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3C2B MUTATED        3      8      4      0      2      1      1
  PIK3C2B WILD-TYPE     69    101     86     44     47     45     67
D316V8, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               3                69
  CLUS_2               8               101
  CLUS_3               4                86
  CLUS_4               0                44
  CLUS_5               2                47
  CLUS_6               1                45
  CLUS_7               1                67
[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
  PIK3C2B MUTATED        4     11      4
  PIK3C2B WILD-TYPE    171    200     86
D316V9, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               4               171
  CLUS_2              11               200
  CLUS_3               4                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
  PIK3C2B MUTATED        1     11      4      3
  PIK3C2B WILD-TYPE     69    175    127     86
D316V10, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               1                69
  CLUS_2              11               175
  CLUS_3               4               127
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PIK3C2B MUTATED        4     10      3
  PIK3C2B WILD-TYPE    137    172     86
D316V11, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               4               137
  CLUS_2              10               172
  CLUS_3               3                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
  PIK3C2B MUTATED        0     14      3
  PIK3C2B WILD-TYPE     94    219     82
D316V12, multiclass
        clus
vv       PIK3C2B MUTATED PIK3C2B WILD-TYPE
  CLUS_1               0                94
  CLUS_2              14               219
  CLUS_3               3                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"

Clustering(317) Variable = FTSJ1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FTSJ1 MUTATED        1      0      0      0
  FTSJ1 WILD-TYPE      4      7      5      3
D317V1, multiclass
[1] "Remove cluster labels:" "FTSJ1 MUTATED"         
clus
  FTSJ1 MUTATED FTSJ1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-64-1676      TCGA-64-1677 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FTSJ1 MUTATED        0      0      1
  FTSJ1 WILD-TYPE      7      9      3
D317V2, multiclass
[1] "Remove cluster labels:" "FTSJ1 MUTATED"         
clus
  FTSJ1 MUTATED FTSJ1 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-64-1676      TCGA-64-1677 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" "FTSJ1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FTSJ1 MUTATED        1      2      2      2
  FTSJ1 WILD-TYPE     64    208     70    129
D317V3, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FTSJ1 MUTATED        0      4      2
  FTSJ1 WILD-TYPE    131    134    159
D317V4, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             4             134
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FTSJ1 MUTATED        2      1      0
  FTSJ1 WILD-TYPE     40     70     63
D317V5, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              70
  CLUS_3             0              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 CLUS_4 CLUS_5
  FTSJ1 MUTATED        0      1      1      0      1
  FTSJ1 WILD-TYPE     39     31     42     30     31
D317V6, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FTSJ1 MUTATED        0      4      3
  FTSJ1 WILD-TYPE    150    181    140
D317V7, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             4             181
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FTSJ1 MUTATED        0      3      2      1      1      0      0
  FTSJ1 WILD-TYPE     72    106     88     43     48     46     68
D317V8, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             0              68
[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
  FTSJ1 MUTATED        2      2      3
  FTSJ1 WILD-TYPE    173    209     87
D317V9, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             2             209
  CLUS_3             3              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
  FTSJ1 MUTATED        2      3      0      2
  FTSJ1 WILD-TYPE     68    183    131     87
D317V10, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             0             131
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FTSJ1 MUTATED        3      3      0
  FTSJ1 WILD-TYPE    138    179     89
D317V11, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             0              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
  FTSJ1 MUTATED        2      3      1
  FTSJ1 WILD-TYPE     92    230     84
D317V12, multiclass
        clus
vv       FTSJ1 MUTATED FTSJ1 WILD-TYPE
  CLUS_1             2              92
  CLUS_2             3             230
  CLUS_3             1              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"

Clustering(318) Variable = IFNA6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFNA6 MUTATED        0      0      0      0
  IFNA6 WILD-TYPE      5      7      5      3
D318V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA6 MUTATED        0      0      0
  IFNA6 WILD-TYPE      7      9      4
D318V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IFNA6 MUTATED        0      6      0      0
  IFNA6 WILD-TYPE     65    204     72    131
D318V3, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             6             204
  CLUS_3             0              72
  CLUS_4             0             131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA6 MUTATED        2      2      2
  IFNA6 WILD-TYPE    129    136    159
D318V4, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA6 MUTATED        0      2      1
  IFNA6 WILD-TYPE     42     69     62
D318V5, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             2              69
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IFNA6 MUTATED        1      0      1      0      1
  IFNA6 WILD-TYPE     38     32     42     30     31
D318V6, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA6 MUTATED        1      3      2
  IFNA6 WILD-TYPE    149    182    141
D318V7, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             3             182
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IFNA6 MUTATED        0      2      0      1      1      0      2
  IFNA6 WILD-TYPE     72    107     90     43     48     46     66
D318V8, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             0              90
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             0              46
  CLUS_7             2              66
[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
  IFNA6 MUTATED        2      3      1
  IFNA6 WILD-TYPE    173    208     89
D318V9, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             3             208
  CLUS_3             1              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
  IFNA6 MUTATED        2      2      0      2
  IFNA6 WILD-TYPE     68    184    131     87
D318V10, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             2             184
  CLUS_3             0             131
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IFNA6 MUTATED        2      2      2
  IFNA6 WILD-TYPE    139    180     87
D318V11, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             2             180
  CLUS_3             2              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
  IFNA6 MUTATED        1      4      1
  IFNA6 WILD-TYPE     93    229     84
D318V12, multiclass
        clus
vv       IFNA6 MUTATED IFNA6 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             4             229
  CLUS_3             1              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"

Clustering(319) Variable = MME MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MME MUTATED        1      0      0      0
  MME WILD-TYPE      4      7      5      3
D319V1, multiclass
[1] "Remove cluster labels:" "MME MUTATED"           
clus
  MME MUTATED MME WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1676 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MME MUTATED        0      0      1
  MME WILD-TYPE      7      9      3
D319V2, multiclass
[1] "Remove cluster labels:" "MME MUTATED"           
clus
  MME MUTATED MME WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1676 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" "MME WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MME MUTATED        1      4      7      2
  MME WILD-TYPE     64    206     65    129
D319V3, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           1            64
  CLUS_2           4           206
  CLUS_3           7            65
  CLUS_4           2           129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MME MUTATED        3      5      3
  MME WILD-TYPE    128    133    158
D319V4, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           3           128
  CLUS_2           5           133
  CLUS_3           3           158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MME MUTATED        0      1      2
  MME WILD-TYPE     42     70     61
D319V5, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           0            42
  CLUS_2           1            70
  CLUS_3           2            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
  MME MUTATED        0      0      2      1      0
  MME WILD-TYPE     39     32     41     29     32
D319V6, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           0            39
  CLUS_2           0            32
  CLUS_3           2            41
  CLUS_4           1            29
  CLUS_5           0            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MME MUTATED        0      9      5
  MME WILD-TYPE    150    176    138
D319V7, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           0           150
  CLUS_2           9           176
  CLUS_3           5           138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MME MUTATED        1      5      4      1      1      2      0
  MME WILD-TYPE     71    104     86     43     48     44     68
D319V8, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           1            71
  CLUS_2           5           104
  CLUS_3           4            86
  CLUS_4           1            43
  CLUS_5           1            48
  CLUS_6           2            44
  CLUS_7           0            68
[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
  MME MUTATED        2      8      2
  MME WILD-TYPE    173    203     88
D319V9, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           2           173
  CLUS_2           8           203
  CLUS_3           2            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
  MME MUTATED        1      6      0      5
  MME WILD-TYPE     69    180    131     84
D319V10, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           1            69
  CLUS_2           6           180
  CLUS_3           0           131
  CLUS_4           5            84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MME MUTATED        2      5      3
  MME WILD-TYPE    139    177     86
D319V11, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           2           139
  CLUS_2           5           177
  CLUS_3           3            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
  MME MUTATED        0     10      0
  MME WILD-TYPE     94    223     85
D319V12, multiclass
        clus
vv       MME MUTATED MME WILD-TYPE
  CLUS_1           0            94
  CLUS_2          10           223
  CLUS_3           0            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"

Clustering(320) Variable = HYDIN MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HYDIN MUTATED        1      2      0      0
  HYDIN WILD-TYPE      4      5      5      3
D320V1, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             1               4
  CLUS_2             2               5
  CLUS_3             0               5
  CLUS_4             0               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
  HYDIN MUTATED        1      1      1
  HYDIN WILD-TYPE      6      8      3
D320V2, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             1               6
  CLUS_2             1               8
  CLUS_3             1               3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HYDIN MUTATED        6     16     11     16
  HYDIN WILD-TYPE     59    194     61    115
D320V3, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             6              59
  CLUS_2            16             194
  CLUS_3            11              61
  CLUS_4            16             115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED        8     15     19
  HYDIN WILD-TYPE    123    123    142
D320V4, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             8             123
  CLUS_2            15             123
  CLUS_3            19             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED        2      8      4
  HYDIN WILD-TYPE     40     63     59
D320V5, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             2              40
  CLUS_2             8              63
  CLUS_3             4              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 CLUS_4 CLUS_5
  HYDIN MUTATED        3      4      2      4      1
  HYDIN WILD-TYPE     36     28     41     26     31
D320V6, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             3              36
  CLUS_2             4              28
  CLUS_3             2              41
  CLUS_4             4              26
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED       10     26     12
  HYDIN WILD-TYPE    140    159    131
D320V7, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            10             140
  CLUS_2            26             159
  CLUS_3            12             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HYDIN MUTATED        4     16      9      2      6      5      6
  HYDIN WILD-TYPE     68     93     81     42     43     41     62
D320V8, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             4              68
  CLUS_2            16              93
  CLUS_3             9              81
  CLUS_4             2              42
  CLUS_5             6              43
  CLUS_6             5              41
  CLUS_7             6              62
[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
  HYDIN MUTATED       12     29      7
  HYDIN WILD-TYPE    163    182     83
D320V9, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            12             163
  CLUS_2            29             182
  CLUS_3             7              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
  HYDIN MUTATED        8     22      4     14
  HYDIN WILD-TYPE     62    164    127     75
D320V10, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             8              62
  CLUS_2            22             164
  CLUS_3             4             127
  CLUS_4            14              75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HYDIN MUTATED       10     20     10
  HYDIN WILD-TYPE    131    162     79
D320V11, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1            10             131
  CLUS_2            20             162
  CLUS_3            10              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
  HYDIN MUTATED        3     31      6
  HYDIN WILD-TYPE     91    202     79
D320V12, multiclass
        clus
vv       HYDIN MUTATED HYDIN WILD-TYPE
  CLUS_1             3              91
  CLUS_2            31             202
  CLUS_3             6              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"

Clustering(321) Variable = ILF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ILF3 MUTATED        0      1      0      0
  ILF3 WILD-TYPE      5      6      5      3
D321V1, multiclass
[1] "Remove cluster labels:" "ILF3 MUTATED"          
clus
  ILF3 MUTATED ILF3 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ILF3 MUTATED        1      0      0
  ILF3 WILD-TYPE      6      9      4
D321V2, multiclass
[1] "Remove cluster labels:" "ILF3 MUTATED"          
clus
  ILF3 MUTATED ILF3 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ILF3 MUTATED        0      1      1      3
  ILF3 WILD-TYPE     65    209     71    128
D321V3, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            1            209
  CLUS_3            1             71
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ILF3 MUTATED        1      1      2
  ILF3 WILD-TYPE    130    137    159
D321V4, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            1            137
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ILF3 MUTATED        0      1      1
  ILF3 WILD-TYPE     42     70     62
D321V5, multiclass
[1] "Remove cluster labels:" "ILF3 MUTATED"          
clus
  ILF3 MUTATED ILF3 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7567 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ILF3 MUTATED        1      0      1      0      0
  ILF3 WILD-TYPE     38     32     42     30     32
D321V6, multiclass
[1] "Remove cluster labels:" "ILF3 MUTATED"          
clus
  ILF3 MUTATED ILF3 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7567 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"ILF3 WILD-TYPE" "ILF3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ILF3 MUTATED        1      3      1
  ILF3 WILD-TYPE    149    182    142
D321V7, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            3            182
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ILF3 MUTATED        0      3      2      0      0      0      0
  ILF3 WILD-TYPE     72    106     88     44     49     46     68
D321V8, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            3            106
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            0             46
  CLUS_7            0             68
[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
  ILF3 MUTATED        0      4      0
  ILF3 WILD-TYPE    175    207     90
D321V9, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            0            175
  CLUS_2            4            207
  CLUS_3            0             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
  ILF3 MUTATED        1      1      0      2
  ILF3 WILD-TYPE     69    185    131     87
D321V10, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1            185
  CLUS_3            0            131
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ILF3 MUTATED        0      3      0
  ILF3 WILD-TYPE    141    179     89
D321V11, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            0            141
  CLUS_2            3            179
  CLUS_3            0             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
  ILF3 MUTATED        0      3      0
  ILF3 WILD-TYPE     94    230     85
D321V12, multiclass
        clus
vv       ILF3 MUTATED ILF3 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            3            230
  CLUS_3            0             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"

Clustering(322) Variable = METTL2B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  METTL2B MUTATED        0      0      0      0
  METTL2B WILD-TYPE      5      7      5      3
D322V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METTL2B MUTATED        0      0      0
  METTL2B WILD-TYPE      7      9      4
D322V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  METTL2B MUTATED        1      2      0      1
  METTL2B WILD-TYPE     64    208     72    130
D322V3, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               1                64
  CLUS_2               2               208
  CLUS_3               0                72
  CLUS_4               1               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METTL2B MUTATED        2      1      1
  METTL2B WILD-TYPE    129    137    160
D322V4, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               2               129
  CLUS_2               1               137
  CLUS_3               1               160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METTL2B MUTATED        0      1      0
  METTL2B WILD-TYPE     42     70     63
D322V5, multiclass
[1] "Remove cluster labels:" "METTL2B MUTATED"       
clus
  METTL2B MUTATED METTL2B WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-64-5778        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  METTL2B MUTATED        0      0      0      1      0
  METTL2B WILD-TYPE     39     32     43     29     32
D322V6, multiclass
[1] "Remove cluster labels:" "METTL2B MUTATED"       
clus
  METTL2B MUTATED METTL2B WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-64-5778        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"METTL2B WILD-TYPE" "METTL2B WILD-TYPE" "METTL2B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METTL2B MUTATED        0      3      1
  METTL2B WILD-TYPE    150    182    142
D322V7, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               0               150
  CLUS_2               3               182
  CLUS_3               1               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  METTL2B MUTATED        1      1      1      0      0      1      0
  METTL2B WILD-TYPE     71    108     89     44     49     45     68
D322V8, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               1                71
  CLUS_2               1               108
  CLUS_3               1                89
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               0                68
[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
  METTL2B MUTATED        0      1      3
  METTL2B WILD-TYPE    175    210     87
D322V9, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               0               175
  CLUS_2               1               210
  CLUS_3               3                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
  METTL2B MUTATED        0      2      0      2
  METTL2B WILD-TYPE     70    184    131     87
D322V10, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2               184
  CLUS_3               0               131
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  METTL2B MUTATED        1      1      2
  METTL2B WILD-TYPE    140    181     87
D322V11, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               1               140
  CLUS_2               1               181
  CLUS_3               2                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
  METTL2B MUTATED        0      4      0
  METTL2B WILD-TYPE     94    229     85
D322V12, multiclass
        clus
vv       METTL2B MUTATED METTL2B WILD-TYPE
  CLUS_1               0                94
  CLUS_2               4               229
  CLUS_3               0                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"

Clustering(323) Variable = ZNF511 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF511 MUTATED        0      0      0      0
  ZNF511 WILD-TYPE      5      7      5      3
D323V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF511 MUTATED        0      0      0
  ZNF511 WILD-TYPE      7      9      4
D323V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF511 MUTATED        2      2      1      4
  ZNF511 WILD-TYPE     63    208     71    127
D323V3, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              2              208
  CLUS_3              1               71
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF511 MUTATED        2      2      4
  ZNF511 WILD-TYPE    129    136    157
D323V4, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              2              136
  CLUS_3              4              157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF511 MUTATED        0      2      3
  ZNF511 WILD-TYPE     42     69     60
D323V5, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              3               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
  ZNF511 MUTATED        1      0      1      2      1
  ZNF511 WILD-TYPE     38     32     42     28     31
D323V6, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              2               28
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF511 MUTATED        2      5      2
  ZNF511 WILD-TYPE    148    180    141
D323V7, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              5              180
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF511 MUTATED        1      3      1      0      2      1      1
  ZNF511 WILD-TYPE     71    106     89     44     47     45     67
D323V8, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              3              106
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              1               45
  CLUS_7              1               67
[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
  ZNF511 MUTATED        3      4      2
  ZNF511 WILD-TYPE    172    207     88
D323V9, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              3              172
  CLUS_2              4              207
  CLUS_3              2               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
  ZNF511 MUTATED        3      5      1      0
  ZNF511 WILD-TYPE     67    181    130     89
D323V10, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              5              181
  CLUS_3              1              130
  CLUS_4              0               89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF511 MUTATED        3      3      2
  ZNF511 WILD-TYPE    138    179     87
D323V11, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              3              138
  CLUS_2              3              179
  CLUS_3              2               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
  ZNF511 MUTATED        0      3      5
  ZNF511 WILD-TYPE     94    230     80
D323V12, multiclass
        clus
vv       ZNF511 MUTATED ZNF511 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              3              230
  CLUS_3              5               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"

Clustering(324) Variable = U2AF1L4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  U2AF1L4 MUTATED        0      0      0      0
  U2AF1L4 WILD-TYPE      5      7      5      3
D324V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  U2AF1L4 MUTATED        0      0      0
  U2AF1L4 WILD-TYPE      7      9      4
D324V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  U2AF1L4 MUTATED        0      2      2      1
  U2AF1L4 WILD-TYPE     65    208     70    130
D324V3, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               2               208
  CLUS_3               2                70
  CLUS_4               1               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  U2AF1L4 MUTATED        2      1      2
  U2AF1L4 WILD-TYPE    129    137    159
D324V4, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               1               137
  CLUS_3               2               159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  U2AF1L4 MUTATED        0      0      1
  U2AF1L4 WILD-TYPE     42     71     62
D324V5, multiclass
[1] "Remove cluster labels:" "U2AF1L4 MUTATED"       
clus
  U2AF1L4 MUTATED U2AF1L4 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7039 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-95-7043        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  U2AF1L4 MUTATED        0      0      1      0      0
  U2AF1L4 WILD-TYPE     39     32     42     30     32
D324V6, multiclass
[1] "Remove cluster labels:" "U2AF1L4 MUTATED"       
clus
  U2AF1L4 MUTATED U2AF1L4 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-91-6829        TCGA-91-6835        TCGA-91-6840        TCGA-91-6847 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-91-6849        TCGA-91-7771        TCGA-93-7348        TCGA-95-7039 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-95-7043        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" "U2AF1L4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  U2AF1L4 MUTATED        1      3      1
  U2AF1L4 WILD-TYPE    149    182    142
D324V7, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               3               182
  CLUS_3               1               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  U2AF1L4 MUTATED        0      2      2      0      0      1      0
  U2AF1L4 WILD-TYPE     72    107     88     44     49     45     68
D324V8, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               2               107
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               0                68
[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
  U2AF1L4 MUTATED        1      3      1
  U2AF1L4 WILD-TYPE    174    208     89
D324V9, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               3               208
  CLUS_3               1                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
  U2AF1L4 MUTATED        0      3      0      2
  U2AF1L4 WILD-TYPE     70    183    131     87
D324V10, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3               183
  CLUS_3               0               131
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  U2AF1L4 MUTATED        1      3      1
  U2AF1L4 WILD-TYPE    140    179     88
D324V11, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               3               179
  CLUS_3               1                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
  U2AF1L4 MUTATED        0      5      0
  U2AF1L4 WILD-TYPE     94    228     85
D324V12, multiclass
        clus
vv       U2AF1L4 MUTATED U2AF1L4 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               5               228
  CLUS_3               0                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"

Clustering(325) Variable = HTR3D MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTR3D MUTATED        0      0      0      0
  HTR3D WILD-TYPE      5      7      5      3
D325V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR3D MUTATED        0      0      0
  HTR3D WILD-TYPE      7      9      4
D325V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTR3D MUTATED        1      1      0      2
  HTR3D WILD-TYPE     64    209     72    129
D325V3, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             1              64
  CLUS_2             1             209
  CLUS_3             0              72
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR3D MUTATED        1      3      0
  HTR3D WILD-TYPE    130    135    161
D325V4, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             1             130
  CLUS_2             3             135
  CLUS_3             0             161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR3D MUTATED        0      0      1
  HTR3D WILD-TYPE     42     71     62
D325V5, multiclass
[1] "Remove cluster labels:" "HTR3D MUTATED"         
clus
  HTR3D MUTATED HTR3D WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6849 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HTR3D MUTATED        0      0      1      0      0
  HTR3D WILD-TYPE     39     32     42     30     32
D325V6, multiclass
[1] "Remove cluster labels:" "HTR3D MUTATED"         
clus
  HTR3D MUTATED HTR3D WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7158 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7159      TCGA-78-7160      TCGA-78-7161      TCGA-78-7162 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7163      TCGA-78-7166      TCGA-78-7167      TCGA-78-7535 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-80-5607      TCGA-80-5608 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-86-6562      TCGA-86-6851      TCGA-86-7713      TCGA-91-6828 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6835      TCGA-91-6840      TCGA-91-6849 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"HTR3D WILD-TYPE" "HTR3D WILD-TYPE" "HTR3D WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR3D MUTATED        0      1      3
  HTR3D WILD-TYPE    150    184    140
D325V7, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             0             150
  CLUS_2             1             184
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HTR3D MUTATED        0      0      3      1      0      0      0
  HTR3D WILD-TYPE     72    109     87     43     49     46     68
D325V8, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             0              72
  CLUS_2             0             109
  CLUS_3             3              87
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             0              68
[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
  HTR3D MUTATED        1      2      1
  HTR3D WILD-TYPE    174    209     89
D325V9, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             1             174
  CLUS_2             2             209
  CLUS_3             1              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
  HTR3D MUTATED        1      2      0      1
  HTR3D WILD-TYPE     69    184    131     88
D325V10, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2             184
  CLUS_3             0             131
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTR3D MUTATED        1      3      0
  HTR3D WILD-TYPE    140    179     89
D325V11, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             1             140
  CLUS_2             3             179
  CLUS_3             0              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
  HTR3D MUTATED        1      3      0
  HTR3D WILD-TYPE     93    230     85
D325V12, multiclass
        clus
vv       HTR3D MUTATED HTR3D WILD-TYPE
  CLUS_1             1              93
  CLUS_2             3             230
  CLUS_3             0              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"

Clustering(326) Variable = EIF4E2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4E2 MUTATED        0      0      0      0
  EIF4E2 WILD-TYPE      5      7      5      3
D326V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4E2 MUTATED        0      0      0
  EIF4E2 WILD-TYPE      7      9      4
D326V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4E2 MUTATED        1      0      1      2
  EIF4E2 WILD-TYPE     64    210     71    129
D326V3, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              0              210
  CLUS_3              1               71
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4E2 MUTATED        0      2      2
  EIF4E2 WILD-TYPE    131    136    159
D326V4, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              0              131
  CLUS_2              2              136
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4E2 MUTATED        1      0      0
  EIF4E2 WILD-TYPE     41     71     63
D326V5, multiclass
[1] "Remove cluster labels:" "EIF4E2 MUTATED"        
clus
  EIF4E2 MUTATED EIF4E2 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-80-5607       TCGA-80-5608 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7713       TCGA-91-6828 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-91-6829       TCGA-91-6835       TCGA-91-6840       TCGA-91-6847 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-91-6849       TCGA-91-7771       TCGA-93-7348       TCGA-95-7039 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-95-7043       TCGA-95-7567       TCGA-95-7948       TCGA-97-7546 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4E2 MUTATED        0      0      0      1      0
  EIF4E2 WILD-TYPE     39     32     43     29     32
D326V6, multiclass
[1] "Remove cluster labels:" "EIF4E2 MUTATED"        
clus
  EIF4E2 MUTATED EIF4E2 WILD-TYPE 
               1              175 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7150       TCGA-78-7152       TCGA-78-7153 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7154       TCGA-78-7155       TCGA-78-7156       TCGA-78-7158 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7159       TCGA-78-7160       TCGA-78-7161       TCGA-78-7162 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7163       TCGA-78-7166       TCGA-78-7167       TCGA-78-7535 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7536       TCGA-78-7537       TCGA-78-7539       TCGA-78-7540 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-78-7542       TCGA-78-7633       TCGA-80-5607       TCGA-80-5608 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-86-6562       TCGA-86-6851       TCGA-86-7713       TCGA-91-6828 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-91-6829       TCGA-91-6835       TCGA-91-6840       TCGA-91-6847 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-91-6849       TCGA-91-7771       TCGA-93-7348       TCGA-95-7039 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-95-7043       TCGA-95-7567       TCGA-95-7948       TCGA-97-7546 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-97-7552       TCGA-97-7553       TCGA-97-7554       TCGA-97-7937 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
      TCGA-97-7938       TCGA-97-7941       TCGA-99-7458 
"EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" "EIF4E2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4E2 MUTATED        1      3      0
  EIF4E2 WILD-TYPE    149    182    143
D326V7, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              3              182
  CLUS_3              0              143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EIF4E2 MUTATED        0      2      1      0      0      1      0
  EIF4E2 WILD-TYPE     72    107     89     44     49     45     68
D326V8, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              2              107
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              0               49
  CLUS_6              1               45
  CLUS_7              0               68
[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
  EIF4E2 MUTATED        1      3      0
  EIF4E2 WILD-TYPE    174    208     90
D326V9, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              1              174
  CLUS_2              3              208
  CLUS_3              0               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
  EIF4E2 MUTATED        0      3      1      0
  EIF4E2 WILD-TYPE     70    183    130     89
D326V10, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              3              183
  CLUS_3              1              130
  CLUS_4              0               89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4E2 MUTATED        0      3      1
  EIF4E2 WILD-TYPE    141    179     88
D326V11, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              0              141
  CLUS_2              3              179
  CLUS_3              1               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
  EIF4E2 MUTATED        0      4      0
  EIF4E2 WILD-TYPE     94    229     85
D326V12, multiclass
        clus
vv       EIF4E2 MUTATED EIF4E2 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              4              229
  CLUS_3              0               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"

Clustering(327) Variable = GAL3ST4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAL3ST4 MUTATED        0      1      0      0
  GAL3ST4 WILD-TYPE      5      6      5      3
D327V1, multiclass
[1] "Remove cluster labels:" "GAL3ST4 MUTATED"       
clus
  GAL3ST4 MUTATED GAL3ST4 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3919        TCGA-44-4112 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GAL3ST4 MUTATED        0      1      0
  GAL3ST4 WILD-TYPE      7      8      4
D327V2, multiclass
[1] "Remove cluster labels:" "GAL3ST4 MUTATED"       
clus
  GAL3ST4 MUTATED GAL3ST4 WILD-TYPE 
                1                19 
       TCGA-05-4244        TCGA-05-4249        TCGA-05-4250        TCGA-35-4122 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-35-4123        TCGA-44-2656        TCGA-44-2657        TCGA-44-2661 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-2665        TCGA-44-3398        TCGA-44-3919        TCGA-44-4112 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-1595        TCGA-64-1676        TCGA-64-1677 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-67-3771        TCGA-67-3772        TCGA-67-3773 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAL3ST4 MUTATED        1      5      1      4
  GAL3ST4 WILD-TYPE     64    205     71    127
D327V3, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               5               205
  CLUS_3               1                71
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GAL3ST4 MUTATED        0      5      5
  GAL3ST4 WILD-TYPE    131    133    156
D327V4, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               0               131
  CLUS_2               5               133
  CLUS_3               5               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GAL3ST4 MUTATED        0      1      0
  GAL3ST4 WILD-TYPE     42     70     63
D327V5, multiclass
[1] "Remove cluster labels:" "GAL3ST4 MUTATED"       
clus
  GAL3ST4 MUTATED GAL3ST4 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GAL3ST4 MUTATED        0      0      1      0      0
  GAL3ST4 WILD-TYPE     39     32     42     30     32
D327V6, multiclass
[1] "Remove cluster labels:" "GAL3ST4 MUTATED"       
clus
  GAL3ST4 MUTATED GAL3ST4 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-55-7911        TCGA-64-1676 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-64-1677        TCGA-64-1679        TCGA-64-1681        TCGA-64-5774 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-64-5778        TCGA-64-5781        TCGA-67-3771        TCGA-67-6215 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-67-6216        TCGA-67-6217        TCGA-69-7760        TCGA-69-7761 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-69-7763        TCGA-69-7764        TCGA-69-7765        TCGA-71-6725 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-73-4658        TCGA-73-4659        TCGA-73-4675        TCGA-73-4676 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-73-7498        TCGA-73-7499        TCGA-75-5122        TCGA-75-6203 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-75-6205        TCGA-75-6207        TCGA-75-6211        TCGA-75-6212 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-75-6214        TCGA-75-7027        TCGA-75-7030        TCGA-75-7031 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7143        TCGA-78-7145        TCGA-78-7147        TCGA-78-7148 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7149        TCGA-78-7150        TCGA-78-7152        TCGA-78-7153 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7154        TCGA-78-7155        TCGA-78-7156        TCGA-78-7158 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7159        TCGA-78-7160        TCGA-78-7161        TCGA-78-7162 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7163        TCGA-78-7166        TCGA-78-7167        TCGA-78-7535 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7536        TCGA-78-7537        TCGA-78-7539        TCGA-78-7540 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-78-7542        TCGA-78-7633        TCGA-80-5607        TCGA-80-5608 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-86-6562        TCGA-86-6851        TCGA-86-7713        TCGA-91-6828 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" "GAL3ST4 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GAL3ST4 MUTATED        4      4      3
  GAL3ST4 WILD-TYPE    146    181    140
D327V7, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               4               146
  CLUS_2               4               181
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GAL3ST4 MUTATED        0      4      3      0      2      0      2
  GAL3ST4 WILD-TYPE     72    105     87     44     47     46     66
D327V8, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               4               105
  CLUS_3               3                87
  CLUS_4               0                44
  CLUS_5               2                47
  CLUS_6               0                46
  CLUS_7               2                66
[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
  GAL3ST4 MUTATED        1      4      6
  GAL3ST4 WILD-TYPE    174    207     84
D327V9, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               4               207
  CLUS_3               6                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
  GAL3ST4 MUTATED        0      6      2      3
  GAL3ST4 WILD-TYPE     70    180    129     86
D327V10, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               6               180
  CLUS_3               2               129
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GAL3ST4 MUTATED        1      4      4
  GAL3ST4 WILD-TYPE    140    178     85
D327V11, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               4               178
  CLUS_3               4                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
  GAL3ST4 MUTATED        2      6      1
  GAL3ST4 WILD-TYPE     92    227     84
D327V12, multiclass
        clus
vv       GAL3ST4 MUTATED GAL3ST4 WILD-TYPE
  CLUS_1               2                92
  CLUS_2               6               227
  CLUS_3               1                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"

Clustering(328) Variable = MBD1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBD1 MUTATED        0      0      0      1
  MBD1 WILD-TYPE      5      7      5      2
D328V1, multiclass
[1] "Remove cluster labels:" "MBD1 MUTATED"          
clus
  MBD1 MUTATED MBD1 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD1 MUTATED        0      0      1
  MBD1 WILD-TYPE      7      9      3
D328V2, multiclass
[1] "Remove cluster labels:" "MBD1 MUTATED"          
clus
  MBD1 MUTATED MBD1 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3398     TCGA-44-3918     TCGA-44-3919 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-44-4112     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"MBD1 WILD-TYPE" "MBD1 WILD-TYPE" "MBD1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MBD1 MUTATED        2      2      0      6
  MBD1 WILD-TYPE     63    208     72    125
D328V3, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            2            208
  CLUS_3            0             72
  CLUS_4            6            125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD1 MUTATED        1      3      4
  MBD1 WILD-TYPE    130    135    157
D328V4, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD1 MUTATED        0      2      2
  MBD1 WILD-TYPE     42     69     61
D328V5, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            0             42
  CLUS_2            2             69
  CLUS_3            2             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
  MBD1 MUTATED        1      0      1      2      0
  MBD1 WILD-TYPE     38     32     42     28     32
D328V6, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            1             38
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD1 MUTATED        3      2      5
  MBD1 WILD-TYPE    147    183    138
D328V7, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            2            183
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MBD1 MUTATED        1      2      4      1      1      1      0
  MBD1 WILD-TYPE     71    107     86     43     48     45     68
D328V8, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            2            107
  CLUS_3            4             86
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            1             45
  CLUS_7            0             68
[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
  MBD1 MUTATED        4      5      1
  MBD1 WILD-TYPE    171    206     89
D328V9, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            4            171
  CLUS_2            5            206
  CLUS_3            1             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
  MBD1 MUTATED        1      4      1      4
  MBD1 WILD-TYPE     69    182    130     85
D328V10, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            182
  CLUS_3            1            130
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MBD1 MUTATED        5      1      2
  MBD1 WILD-TYPE    136    181     87
D328V11, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            5            136
  CLUS_2            1            181
  CLUS_3            2             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
  MBD1 MUTATED        1      7      0
  MBD1 WILD-TYPE     93    226     85
D328V12, multiclass
        clus
vv       MBD1 MUTATED MBD1 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            7            226
  CLUS_3            0             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"

Clustering(329) Variable = WAC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WAC MUTATED        0      0      0      0
  WAC WILD-TYPE      5      7      5      3
D329V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WAC MUTATED        0      0      0
  WAC WILD-TYPE      7      9      4
D329V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  WAC MUTATED        2      5      0      4
  WAC WILD-TYPE     63    205     72    127
D329V3, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           2            63
  CLUS_2           5           205
  CLUS_3           0            72
  CLUS_4           4           127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WAC MUTATED        3      3      3
  WAC WILD-TYPE    128    135    158
D329V4, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           3           128
  CLUS_2           3           135
  CLUS_3           3           158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WAC MUTATED        0      1      1
  WAC WILD-TYPE     42     70     62
D329V5, multiclass
[1] "Remove cluster labels:" "WAC MUTATED"           
clus
  WAC MUTATED WAC WILD-TYPE 
            2           174 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4398    TCGA-05-4402 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-05-4405    TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-05-4422    TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-05-5429    TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6147 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777    TCGA-44-6779 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-7659    TCGA-44-7670    TCGA-44-7671    TCGA-44-7672    TCGA-49-4486 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-49-4487    TCGA-49-4488    TCGA-49-4494    TCGA-49-4501    TCGA-49-4505 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-49-4506    TCGA-49-4507    TCGA-49-4510    TCGA-49-4512    TCGA-49-4514 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-49-6742    TCGA-49-6744    TCGA-49-6745    TCGA-49-6761    TCGA-49-6767 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-5044    TCGA-50-5049    TCGA-50-5051    TCGA-50-5068    TCGA-50-5072 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-5931    TCGA-50-5932    TCGA-50-5933    TCGA-50-5936    TCGA-50-5939 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-5941    TCGA-50-5942    TCGA-50-5944    TCGA-50-6593    TCGA-50-6595 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-6597    TCGA-50-6673    TCGA-50-7109    TCGA-53-7626    TCGA-53-7813 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-55-1592    TCGA-55-6543    TCGA-55-6712    TCGA-55-6970    TCGA-55-6971 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-55-6978    TCGA-55-6979    TCGA-55-6981    TCGA-55-6982    TCGA-55-7573 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-55-7574    TCGA-55-7728    TCGA-55-7815    TCGA-55-7911    TCGA-64-1676 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-64-1677    TCGA-64-1679    TCGA-64-1681    TCGA-64-5774    TCGA-64-5778 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216    TCGA-67-6217 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764    TCGA-69-7765 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675    TCGA-73-4676 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203    TCGA-75-6205 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214    TCGA-75-7027 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145    TCGA-78-7147 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152    TCGA-78-7153 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158    TCGA-78-7159 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163    TCGA-78-7166 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537    TCGA-78-7539 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607    TCGA-80-5608 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828    TCGA-91-6829 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849    TCGA-91-7771 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567    TCGA-95-7947 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553    TCGA-97-7554 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  WAC MUTATED        0      0      0      2      0
  WAC WILD-TYPE     39     32     43     28     32
D329V6, multiclass
[1] "Remove cluster labels:" "WAC MUTATED"           
clus
  WAC MUTATED WAC WILD-TYPE 
            2           174 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4398    TCGA-05-4402 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-05-4405    TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-05-4422    TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-05-5429    TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6147 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777    TCGA-44-6779 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-44-7659    TCGA-44-7670    TCGA-44-7671    TCGA-44-7672    TCGA-49-4486 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-49-4487    TCGA-49-4488    TCGA-49-4494    TCGA-49-4501    TCGA-49-4505 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-49-4506    TCGA-49-4507    TCGA-49-4510    TCGA-49-4512    TCGA-49-4514 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-49-6742    TCGA-49-6744    TCGA-49-6745    TCGA-49-6761    TCGA-49-6767 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-5044    TCGA-50-5049    TCGA-50-5051    TCGA-50-5068    TCGA-50-5072 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-5931    TCGA-50-5932    TCGA-50-5933    TCGA-50-5936    TCGA-50-5939 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-5941    TCGA-50-5942    TCGA-50-5944    TCGA-50-6593    TCGA-50-6595 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-50-6597    TCGA-50-6673    TCGA-50-7109    TCGA-53-7626    TCGA-53-7813 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-55-1592    TCGA-55-6543    TCGA-55-6712    TCGA-55-6970    TCGA-55-6971 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-55-6978    TCGA-55-6979    TCGA-55-6981    TCGA-55-6982    TCGA-55-7573 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-55-7574    TCGA-55-7728    TCGA-55-7815    TCGA-55-7911    TCGA-64-1676 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-64-1677    TCGA-64-1679    TCGA-64-1681    TCGA-64-5774    TCGA-64-5778 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216    TCGA-67-6217 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764    TCGA-69-7765 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675    TCGA-73-4676 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203    TCGA-75-6205 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214    TCGA-75-7027 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145    TCGA-78-7147 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152    TCGA-78-7153 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158    TCGA-78-7159 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163    TCGA-78-7166 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537    TCGA-78-7539 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607    TCGA-80-5608 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828    TCGA-91-6829 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849    TCGA-91-7771 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567    TCGA-95-7947 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553    TCGA-97-7554 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
   TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" "WAC WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WAC MUTATED        4      4      3
  WAC WILD-TYPE    146    181    140
D329V7, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           4           146
  CLUS_2           4           181
  CLUS_3           3           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  WAC MUTATED        2      3      4      0      0      0      2
  WAC WILD-TYPE     70    106     86     44     49     46     66
D329V8, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           2            70
  CLUS_2           3           106
  CLUS_3           4            86
  CLUS_4           0            44
  CLUS_5           0            49
  CLUS_6           0            46
  CLUS_7           2            66
[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
  WAC MUTATED        3      3      5
  WAC WILD-TYPE    172    208     85
D329V9, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           3           172
  CLUS_2           3           208
  CLUS_3           5            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
  WAC MUTATED        0      5      5      1
  WAC WILD-TYPE     70    181    126     88
D329V10, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           0            70
  CLUS_2           5           181
  CLUS_3           5           126
  CLUS_4           1            88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  WAC MUTATED        3      1      5
  WAC WILD-TYPE    138    181     84
D329V11, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           3           138
  CLUS_2           1           181
  CLUS_3           5            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
  WAC MUTATED        2      5      2
  WAC WILD-TYPE     92    228     83
D329V12, multiclass
        clus
vv       WAC MUTATED WAC WILD-TYPE
  CLUS_1           2            92
  CLUS_2           5           228
  CLUS_3           2            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"

Clustering(330) Variable = PGBD1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PGBD1 MUTATED        0      0      0      0
  PGBD1 WILD-TYPE      5      7      5      3
D330V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGBD1 MUTATED        0      0      0
  PGBD1 WILD-TYPE      7      9      4
D330V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PGBD1 MUTATED        2      9      1      5
  PGBD1 WILD-TYPE     63    201     71    126
D330V3, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             9             201
  CLUS_3             1              71
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGBD1 MUTATED        0      7      9
  PGBD1 WILD-TYPE    131    131    152
D330V4, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             7             131
  CLUS_3             9             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGBD1 MUTATED        2      5      2
  PGBD1 WILD-TYPE     40     66     61
D330V5, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             5              66
  CLUS_3             2              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
  PGBD1 MUTATED        3      1      3      0      2
  PGBD1 WILD-TYPE     36     31     40     30     30
D330V6, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             3              36
  CLUS_2             1              31
  CLUS_3             3              40
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGBD1 MUTATED        1     10      6
  PGBD1 WILD-TYPE    149    175    137
D330V7, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             1             149
  CLUS_2            10             175
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PGBD1 MUTATED        1      7      4      1      1      3      0
  PGBD1 WILD-TYPE     71    102     86     43     48     43     68
D330V8, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             7             102
  CLUS_3             4              86
  CLUS_4             1              43
  CLUS_5             1              48
  CLUS_6             3              43
  CLUS_7             0              68
[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
  PGBD1 MUTATED        7      7      3
  PGBD1 WILD-TYPE    168    204     87
D330V9, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             7             168
  CLUS_2             7             204
  CLUS_3             3              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
  PGBD1 MUTATED        4      7      3      3
  PGBD1 WILD-TYPE     66    179    128     86
D330V10, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             7             179
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PGBD1 MUTATED        4     10      2
  PGBD1 WILD-TYPE    137    172     87
D330V11, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             4             137
  CLUS_2            10             172
  CLUS_3             2              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
  PGBD1 MUTATED        4     12      0
  PGBD1 WILD-TYPE     90    221     85
D330V12, multiclass
        clus
vv       PGBD1 MUTATED PGBD1 WILD-TYPE
  CLUS_1             4              90
  CLUS_2            12             221
  CLUS_3             0              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"

Clustering(331) Variable = GRHL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRHL2 MUTATED        0      0      0      0
  GRHL2 WILD-TYPE      5      7      5      3
D331V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRHL2 MUTATED        0      0      0
  GRHL2 WILD-TYPE      7      9      4
D331V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GRHL2 MUTATED        1      2      2      4
  GRHL2 WILD-TYPE     64    208     70    127
D331V3, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             2              70
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRHL2 MUTATED        1      6      2
  GRHL2 WILD-TYPE    130    132    159
D331V4, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             1             130
  CLUS_2             6             132
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRHL2 MUTATED        0      0      2
  GRHL2 WILD-TYPE     42     71     61
D331V5, multiclass
[1] "Remove cluster labels:" "GRHL2 MUTATED"         
clus
  GRHL2 MUTATED GRHL2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7567 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GRHL2 MUTATED        0      0      1      1      0
  GRHL2 WILD-TYPE     39     32     42     29     32
D331V6, multiclass
[1] "Remove cluster labels:" "GRHL2 MUTATED"         
clus
  GRHL2 MUTATED GRHL2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7567 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"GRHL2 WILD-TYPE" "GRHL2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRHL2 MUTATED        1      2      6
  GRHL2 WILD-TYPE    149    183    137
D331V7, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             2             183
  CLUS_3             6             137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GRHL2 MUTATED        0      2      1      0      1      4      1
  GRHL2 WILD-TYPE     72    107     89     44     48     42     67
D331V8, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             4              42
  CLUS_7             1              67
[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
  GRHL2 MUTATED        2      7      0
  GRHL2 WILD-TYPE    173    204     90
D331V9, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             7             204
  CLUS_3             0              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
  GRHL2 MUTATED        0      6      2      1
  GRHL2 WILD-TYPE     70    180    129     88
D331V10, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             6             180
  CLUS_3             2             129
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GRHL2 MUTATED        2      7      0
  GRHL2 WILD-TYPE    139    175     89
D331V11, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             7             175
  CLUS_3             0              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
  GRHL2 MUTATED        1      8      0
  GRHL2 WILD-TYPE     93    225     85
D331V12, multiclass
        clus
vv       GRHL2 MUTATED GRHL2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             8             225
  CLUS_3             0              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"

Clustering(332) Variable = TARS2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TARS2 MUTATED        0      1      1      1
  TARS2 WILD-TYPE      5      6      4      2
D332V1, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             0               5
  CLUS_2             1               6
  CLUS_3             1               4
  CLUS_4             1               2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TARS2 MUTATED        1      1      1
  TARS2 WILD-TYPE      6      8      3
D332V2, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             1               8
  CLUS_3             1               3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TARS2 MUTATED        2      4      1      3
  TARS2 WILD-TYPE     63    206     71    128
D332V3, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4             206
  CLUS_3             1              71
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TARS2 MUTATED        2      0      5
  TARS2 WILD-TYPE    129    138    156
D332V4, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             0             138
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TARS2 MUTATED        1      1      3
  TARS2 WILD-TYPE     41     70     60
D332V5, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             3              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
  TARS2 MUTATED        1      1      1      0      2
  TARS2 WILD-TYPE     38     31     42     30     30
D332V6, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TARS2 MUTATED        3      5      2
  TARS2 WILD-TYPE    147    180    141
D332V7, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             3             147
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TARS2 MUTATED        2      4      3      0      0      0      1
  TARS2 WILD-TYPE     70    105     87     44     49     46     67
D332V8, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             4             105
  CLUS_3             3              87
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             1              67
[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
  TARS2 MUTATED        5      3      2
  TARS2 WILD-TYPE    170    208     88
D332V9, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             5             170
  CLUS_2             3             208
  CLUS_3             2              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
  TARS2 MUTATED        2      3      3      2
  TARS2 WILD-TYPE     68    183    128     87
D332V10, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             3             128
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TARS2 MUTATED        3      1      2
  TARS2 WILD-TYPE    138    181     87
D332V11, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             3             138
  CLUS_2             1             181
  CLUS_3             2              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
  TARS2 MUTATED        0      3      3
  TARS2 WILD-TYPE     94    230     82
D332V12, multiclass
        clus
vv       TARS2 MUTATED TARS2 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             3             230
  CLUS_3             3              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"

Clustering(333) Variable = ARHGEF10L MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF10L MUTATED        1      1      0      0
  ARHGEF10L WILD-TYPE      4      6      5      3
D333V1, multiclass
[1] "Remove cluster labels:" "ARHGEF10L MUTATED"     
clus
  ARHGEF10L MUTATED ARHGEF10L WILD-TYPE 
                  2                  18 
         TCGA-05-4249          TCGA-05-4250          TCGA-35-4122 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-35-4123          TCGA-44-2656          TCGA-44-2657 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-44-2661          TCGA-44-2665          TCGA-44-3918 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-44-3919          TCGA-44-4112          TCGA-55-1592 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-55-1595          TCGA-64-1676          TCGA-64-1677 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-67-3771          TCGA-67-3772          TCGA-67-3773 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGEF10L MUTATED        1      1      0
  ARHGEF10L WILD-TYPE      6      8      4
D333V2, multiclass
[1] "Remove cluster labels:" "ARHGEF10L MUTATED"     
clus
  ARHGEF10L MUTATED ARHGEF10L WILD-TYPE 
                  2                  18 
         TCGA-05-4249          TCGA-05-4250          TCGA-35-4122 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-35-4123          TCGA-44-2656          TCGA-44-2657 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-44-2661          TCGA-44-2665          TCGA-44-3918 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-44-3919          TCGA-44-4112          TCGA-55-1592 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-55-1595          TCGA-64-1676          TCGA-64-1677 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
         TCGA-67-3771          TCGA-67-3772          TCGA-67-3773 
"ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" "ARHGEF10L WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARHGEF10L MUTATED        1      5      0      2
  ARHGEF10L WILD-TYPE     64    205     72    129
D333V3, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 1                  64
  CLUS_2                 5                 205
  CLUS_3                 0                  72
  CLUS_4                 2                 129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGEF10L MUTATED        1      2      3
  ARHGEF10L WILD-TYPE    130    136    158
D333V4, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 1                 130
  CLUS_2                 2                 136
  CLUS_3                 3                 158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGEF10L MUTATED        0      3      0
  ARHGEF10L WILD-TYPE     42     68     63
D333V5, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 0                  42
  CLUS_2                 3                  68
  CLUS_3                 0                  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 CLUS_4 CLUS_5
  ARHGEF10L MUTATED        0      0      3      0      0
  ARHGEF10L WILD-TYPE     39     32     40     30     32
D333V6, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 0                  39
  CLUS_2                 0                  32
  CLUS_3                 3                  40
  CLUS_4                 0                  30
  CLUS_5                 0                  32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGEF10L MUTATED        4      3      1
  ARHGEF10L WILD-TYPE    146    182    142
D333V7, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 4                 146
  CLUS_2                 3                 182
  CLUS_3                 1                 142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARHGEF10L MUTATED        1      3      2      0      0      1      1
  ARHGEF10L WILD-TYPE     71    106     88     44     49     45     67
D333V8, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 1                  71
  CLUS_2                 3                 106
  CLUS_3                 2                  88
  CLUS_4                 0                  44
  CLUS_5                 0                  49
  CLUS_6                 1                  45
  CLUS_7                 1                  67
[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
  ARHGEF10L MUTATED        3      1      4
  ARHGEF10L WILD-TYPE    172    210     86
D333V9, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 3                 172
  CLUS_2                 1                 210
  CLUS_3                 4                  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
  ARHGEF10L MUTATED        2      2      3      1
  ARHGEF10L WILD-TYPE     68    184    128     88
D333V10, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 2                  68
  CLUS_2                 2                 184
  CLUS_3                 3                 128
  CLUS_4                 1                  88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  ARHGEF10L MUTATED        2      1      3
  ARHGEF10L WILD-TYPE    139    181     86
D333V11, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 2                 139
  CLUS_2                 1                 181
  CLUS_3                 3                  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
  ARHGEF10L MUTATED        1      3      2
  ARHGEF10L WILD-TYPE     93    230     83
D333V12, multiclass
        clus
vv       ARHGEF10L MUTATED ARHGEF10L WILD-TYPE
  CLUS_1                 1                  93
  CLUS_2                 3                 230
  CLUS_3                 2                  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"

Clustering(334) Variable = EIF4G3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4G3 MUTATED        0      0      0      0
  EIF4G3 WILD-TYPE      5      7      5      3
D334V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G3 MUTATED        0      0      0
  EIF4G3 WILD-TYPE      7      9      4
D334V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF4G3 MUTATED        1      3      5      4
  EIF4G3 WILD-TYPE     64    207     67    127
D334V3, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              3              207
  CLUS_3              5               67
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G3 MUTATED        2      5      4
  EIF4G3 WILD-TYPE    129    133    157
D334V4, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              5              133
  CLUS_3              4              157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G3 MUTATED        1      0      1
  EIF4G3 WILD-TYPE     41     71     62
D334V5, multiclass
[1] "Remove cluster labels:" "EIF4G3 MUTATED"        
clus
  EIF4G3 MUTATED EIF4G3 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF4G3 MUTATED        0      1      0      1      0
  EIF4G3 WILD-TYPE     39     31     43     29     32
D334V6, multiclass
[1] "Remove cluster labels:" "EIF4G3 MUTATED"        
clus
  EIF4G3 MUTATED EIF4G3 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5941 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-5942       TCGA-50-5944       TCGA-50-6593       TCGA-50-6595 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-50-6597       TCGA-50-6673       TCGA-50-7109       TCGA-53-7626 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-53-7813       TCGA-55-1592       TCGA-55-6543       TCGA-55-6712 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-55-6970       TCGA-55-6971       TCGA-55-6978       TCGA-55-6979 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-55-6981       TCGA-55-6982       TCGA-55-7573       TCGA-55-7574 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-55-7728       TCGA-55-7815       TCGA-55-7911       TCGA-64-1676 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-64-1677       TCGA-64-1679       TCGA-64-1681       TCGA-64-5774 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-64-5778       TCGA-64-5781       TCGA-67-3771       TCGA-67-6215 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-67-6216       TCGA-67-6217       TCGA-69-7760       TCGA-69-7761 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-69-7763       TCGA-69-7764       TCGA-69-7765       TCGA-71-6725 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-73-4658       TCGA-73-4659       TCGA-73-4675       TCGA-73-4676 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-73-7498       TCGA-73-7499       TCGA-75-5122       TCGA-75-6203 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-75-6205       TCGA-75-6207       TCGA-75-6211       TCGA-75-6212 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-75-6214       TCGA-75-7027       TCGA-75-7030       TCGA-75-7031 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7143       TCGA-78-7145       TCGA-78-7147       TCGA-78-7148 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7149       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7158       TCGA-78-7159       TCGA-78-7160 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7161       TCGA-78-7162       TCGA-78-7163       TCGA-78-7166 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7167       TCGA-78-7535       TCGA-78-7536       TCGA-78-7537 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-78-7539       TCGA-78-7540       TCGA-78-7542       TCGA-78-7633 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-80-5607       TCGA-80-5608       TCGA-86-6562       TCGA-86-6851 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-86-7713       TCGA-91-6828       TCGA-91-6829       TCGA-91-6835 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-91-6840       TCGA-91-6847       TCGA-91-6849       TCGA-91-7771 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-93-7348       TCGA-95-7039       TCGA-95-7043       TCGA-95-7567 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-95-7947       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"EIF4G3 WILD-TYPE" "EIF4G3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G3 MUTATED        2      5      6
  EIF4G3 WILD-TYPE    148    180    137
D334V7, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              5              180
  CLUS_3              6              137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EIF4G3 MUTATED        0      1      3      2      2      2      3
  EIF4G3 WILD-TYPE     72    108     87     42     47     44     65
D334V8, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              3               87
  CLUS_4              2               42
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              3               65
[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
  EIF4G3 MUTATED        4      8      0
  EIF4G3 WILD-TYPE    171    203     90
D334V9, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              8              203
  CLUS_3              0               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
  EIF4G3 MUTATED        2      3      2      5
  EIF4G3 WILD-TYPE     68    183    129     84
D334V10, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              183
  CLUS_3              2              129
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF4G3 MUTATED        7      3      1
  EIF4G3 WILD-TYPE    134    179     88
D334V11, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              7              134
  CLUS_2              3              179
  CLUS_3              1               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
  EIF4G3 MUTATED        3      7      1
  EIF4G3 WILD-TYPE     91    226     84
D334V12, multiclass
        clus
vv       EIF4G3 MUTATED EIF4G3 WILD-TYPE
  CLUS_1              3               91
  CLUS_2              7              226
  CLUS_3              1               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"

Clustering(335) Variable = CRTC3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC3 MUTATED        0      0      0      0
  CRTC3 WILD-TYPE      5      7      5      3
D335V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC3 MUTATED        0      0      0
  CRTC3 WILD-TYPE      7      9      4
D335V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC3 MUTATED        1      0      0      2
  CRTC3 WILD-TYPE     64    210     72    129
D335V3, multiclass
        clus
vv       CRTC3 MUTATED CRTC3 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             0             210
  CLUS_3             0              72
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC3 MUTATED        0      1      1
  CRTC3 WILD-TYPE    131    137    160
D335V4, multiclass
[1] "Remove cluster labels:" "CRTC3 MUTATED"         
clus
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              2             428 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4415      TCGA-05-4417      TCGA-05-4424      TCGA-05-4425 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4427      TCGA-05-4433      TCGA-05-5420      TCGA-05-5423 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-5425      TCGA-05-5428      TCGA-05-5429      TCGA-05-5715 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-35-5375      TCGA-38-4631      TCGA-38-4632      TCGA-38-6178 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-38-7271      TCGA-38-A44F      TCGA-44-2656      TCGA-44-2665 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-3918      TCGA-44-4112      TCGA-44-5643      TCGA-44-5644 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-5645      TCGA-44-6144      TCGA-44-6145      TCGA-44-6146 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6147      TCGA-44-6148      TCGA-44-6774      TCGA-44-6775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6778      TCGA-44-6779 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7660      TCGA-44-7661      TCGA-44-7662 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7667      TCGA-44-7669      TCGA-44-7670      TCGA-44-7671 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7672      TCGA-44-8117      TCGA-44-8119      TCGA-44-8120 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-A479      TCGA-44-A47A      TCGA-44-A47B      TCGA-44-A47F 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5935      TCGA-50-5936      TCGA-50-5939 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5941      TCGA-50-5942      TCGA-50-5944      TCGA-50-5946 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6590      TCGA-50-6591      TCGA-50-6592      TCGA-50-6593 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6594      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-7109      TCGA-50-8457      TCGA-50-8459      TCGA-50-8460 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-53-7624      TCGA-53-7626      TCGA-53-7813      TCGA-53-A4EZ 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-5899      TCGA-55-6543      TCGA-55-6642      TCGA-55-6712 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6968      TCGA-55-6969      TCGA-55-6970      TCGA-55-6971 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6972      TCGA-55-6975      TCGA-55-6978      TCGA-55-6979 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7725      TCGA-55-7726      TCGA-55-7727 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7816      TCGA-55-7903 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7907      TCGA-55-7910      TCGA-55-7911      TCGA-55-7913 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7914      TCGA-55-7994      TCGA-55-7995      TCGA-55-8085 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8087      TCGA-55-8089      TCGA-55-8090      TCGA-55-8091 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8092      TCGA-55-8094      TCGA-55-8096      TCGA-55-8097 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8203      TCGA-55-8204      TCGA-55-8205      TCGA-55-8206 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8207      TCGA-55-8208      TCGA-55-8299      TCGA-55-8301 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8302      TCGA-55-8505      TCGA-55-8506      TCGA-55-8507 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8508      TCGA-55-8510      TCGA-55-8511      TCGA-55-8512 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8513      TCGA-55-8514      TCGA-55-8614      TCGA-55-8615 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8616      TCGA-55-8619      TCGA-55-8620      TCGA-55-8621 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A48X      TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A491      TCGA-55-A492      TCGA-55-A493      TCGA-55-A494 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A4DF      TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-8397      TCGA-62-8398      TCGA-62-8399      TCGA-62-8402 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A46O      TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A46U      TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A471      TCGA-62-A472      TCGA-64-1679      TCGA-64-1681 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-5774      TCGA-64-5775      TCGA-64-5778      TCGA-64-5779 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-5781      TCGA-64-5815      TCGA-67-4679      TCGA-67-6215 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-69-7973 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7974      TCGA-69-7978      TCGA-69-7979      TCGA-69-7980 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-8253      TCGA-69-8254      TCGA-69-8255      TCGA-69-A59K 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-71-6725      TCGA-71-8520      TCGA-73-4658      TCGA-73-4676 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-5125 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-5126      TCGA-75-5146      TCGA-75-5147      TCGA-75-6203 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6206      TCGA-75-6207      TCGA-75-6211 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-6212      TCGA-75-6214      TCGA-75-7025      TCGA-75-7027 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7146      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7220      TCGA-78-7535 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-78-8640      TCGA-78-8648 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-8655      TCGA-78-8660      TCGA-78-8662      TCGA-80-5607 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-80-5608      TCGA-80-5611      TCGA-83-5908      TCGA-86-6562 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7701      TCGA-86-7711      TCGA-86-7713 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-7714      TCGA-86-7953      TCGA-86-7954      TCGA-86-7955 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8054      TCGA-86-8055      TCGA-86-8056      TCGA-86-8073 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8074      TCGA-86-8075      TCGA-86-8076      TCGA-86-8278 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8279      TCGA-86-8280      TCGA-86-8281      TCGA-86-8358 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8359      TCGA-86-8585      TCGA-86-8668      TCGA-86-8669 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8671      TCGA-86-8672      TCGA-86-8673      TCGA-86-8674 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-A456      TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6828      TCGA-91-6829      TCGA-91-6830      TCGA-91-6831 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6836      TCGA-91-6840      TCGA-91-6847 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6848      TCGA-91-6849      TCGA-91-7771      TCGA-91-8496 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-8497      TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-93-7347      TCGA-93-7348      TCGA-93-8067      TCGA-93-A4JN 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-93-A4JO      TCGA-93-A4JP      TCGA-93-A4JQ      TCGA-95-7039 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7562      TCGA-95-7567      TCGA-95-7944 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-95-8039      TCGA-95-8494 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-A4VK      TCGA-95-A4VN      TCGA-95-A4VP      TCGA-97-7546 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7547      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7937      TCGA-97-7938      TCGA-97-7941      TCGA-97-8171 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-8172      TCGA-97-8174      TCGA-97-8175      TCGA-97-8176 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-8177      TCGA-97-8179      TCGA-97-8547      TCGA-97-8552 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-A4LX      TCGA-97-A4M0      TCGA-97-A4M1      TCGA-97-A4M2 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-A4M3      TCGA-97-A4M5      TCGA-97-A4M6      TCGA-97-A4M7 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-99-7458      TCGA-99-8025      TCGA-99-8028      TCGA-99-8032 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-99-8033      TCGA-J2-8192      TCGA-J2-8194      TCGA-J2-A4AD 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-J2-A4AE      TCGA-J2-A4AG      TCGA-L4-A4E5      TCGA-L4-A4E6 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-L9-A443      TCGA-L9-A444      TCGA-MN-A4N1      TCGA-MN-A4N4 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MN-A4N5      TCGA-MP-A4SV      TCGA-MP-A4SW      TCGA-MP-A4SY 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4T2      TCGA-MP-A4T4      TCGA-MP-A4T6      TCGA-MP-A4T7 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4T8      TCGA-MP-A4T9      TCGA-MP-A4TA      TCGA-MP-A4TC 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4TD      TCGA-MP-A4TE      TCGA-MP-A4TF      TCGA-MP-A4TH 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4TI      TCGA-MP-A4TK      TCGA-MP-A5C7      TCGA-NJ-A4YF 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-NJ-A4YG      TCGA-NJ-A4YI      TCGA-NJ-A4YP      TCGA-NJ-A4YQ 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-NJ-A55A      TCGA-NJ-A55O      TCGA-NJ-A55R      TCGA-O1-A52J 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC3 MUTATED        0      1      0
  CRTC3 WILD-TYPE     42     70     63
D335V5, multiclass
[1] "Remove cluster labels:" "CRTC3 MUTATED"         
clus
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4417      TCGA-05-4418 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRTC3 MUTATED        1      0      0      0      0
  CRTC3 WILD-TYPE     38     32     43     30     32
D335V6, multiclass
[1] "Remove cluster labels:" "CRTC3 MUTATED"         
clus
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4417      TCGA-05-4418 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4420      TCGA-05-4422      TCGA-05-4426      TCGA-05-4430 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5429      TCGA-05-5715 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-38-4626      TCGA-38-4627      TCGA-38-6178      TCGA-44-2656 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-2657      TCGA-44-2661      TCGA-44-2665      TCGA-44-3396 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-3919      TCGA-44-4112      TCGA-44-5645      TCGA-44-6145 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6774      TCGA-44-6775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6779      TCGA-44-7659 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4486      TCGA-49-4487      TCGA-49-4488      TCGA-49-4494 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4501      TCGA-49-4505      TCGA-49-4506      TCGA-49-4507 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4510      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5049      TCGA-50-5051      TCGA-50-5068 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-6593      TCGA-50-6595      TCGA-50-6597 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-53-7626      TCGA-53-7813 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-6543      TCGA-55-6712      TCGA-55-6970 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6978      TCGA-55-6979      TCGA-55-6981 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-7573      TCGA-55-7574      TCGA-55-7728 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7911      TCGA-64-1676      TCGA-64-1677 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC3 MUTATED        1      0      2
  CRTC3 WILD-TYPE    149    185    141
D335V7, multiclass
        clus
vv       CRTC3 MUTATED CRTC3 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             0             185
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CRTC3 MUTATED        0      0      2      0      0      0      1
  CRTC3 WILD-TYPE     72    109     88     44     49     46     67
D335V8, multiclass
        clus
vv       CRTC3 MUTATED CRTC3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             0             109
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             0              46
  CLUS_7             1              67
[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
  CRTC3 MUTATED        1      2      0
  CRTC3 WILD-TYPE    174    209     90
D335V9, multiclass
        clus
vv       CRTC3 MUTATED CRTC3 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             2             209
  CLUS_3             0              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
  CRTC3 MUTATED        0      1      1      1
  CRTC3 WILD-TYPE     70    185    130     88
D335V10, multiclass
        clus
vv       CRTC3 MUTATED CRTC3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1             185
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC3 MUTATED        2      0      0
  CRTC3 WILD-TYPE    139    182     89
D335V11, multiclass
[1] "Remove cluster labels:" "CRTC3 MUTATED"         
clus
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4415      TCGA-05-4417      TCGA-05-4424      TCGA-05-4425 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4427      TCGA-05-4433      TCGA-05-5420      TCGA-05-5423 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-5425      TCGA-05-5428      TCGA-05-5429      TCGA-05-5715 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-35-5375      TCGA-38-4631      TCGA-38-4632      TCGA-38-6178 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643      TCGA-44-5644 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-5645      TCGA-44-6144      TCGA-44-6145      TCGA-44-6146 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6147      TCGA-44-6148      TCGA-44-6774      TCGA-44-6775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6778      TCGA-44-6779 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7660      TCGA-44-7661      TCGA-44-7662 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7667      TCGA-44-7669      TCGA-44-7670      TCGA-44-7671 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7672      TCGA-44-8117      TCGA-44-8119      TCGA-44-8120 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F      TCGA-44-A47G 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487      TCGA-49-4488 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4490      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6743      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5045      TCGA-50-5049 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5051      TCGA-50-5055      TCGA-50-5066      TCGA-50-5068 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5935      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-5946      TCGA-50-6590 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6591      TCGA-50-6592      TCGA-50-6593      TCGA-50-6594 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6595      TCGA-50-6597      TCGA-50-6673      TCGA-50-7109 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-8457      TCGA-50-8459      TCGA-50-8460      TCGA-53-7624 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-53-7626      TCGA-53-7813      TCGA-53-A4EZ      TCGA-55-5899 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6642      TCGA-55-6712      TCGA-55-6968 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6969      TCGA-55-6970      TCGA-55-6971      TCGA-55-6972 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6980      TCGA-55-6981 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-6983      TCGA-55-6984      TCGA-55-6985 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6986      TCGA-55-6987      TCGA-55-7227      TCGA-55-7281 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7283      TCGA-55-7284      TCGA-55-7570      TCGA-55-7573 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7574      TCGA-55-7576      TCGA-55-7724      TCGA-55-7726 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7727      TCGA-55-7728      TCGA-55-7815      TCGA-55-7816 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7903      TCGA-55-7907      TCGA-55-7910      TCGA-55-7911 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7913      TCGA-55-7914      TCGA-55-7994      TCGA-55-8085 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8087      TCGA-55-8089      TCGA-55-8090      TCGA-55-8091 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8092      TCGA-55-8094      TCGA-55-8096      TCGA-55-8203 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8204      TCGA-55-8205      TCGA-55-8206      TCGA-55-8208 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8299      TCGA-55-8301      TCGA-55-8302      TCGA-55-8505 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8506      TCGA-55-8507      TCGA-55-8508      TCGA-55-8510 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8511      TCGA-55-8512      TCGA-55-8513      TCGA-55-8514 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8614      TCGA-55-8615      TCGA-55-8616      TCGA-55-8619 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X      TCGA-55-A48Y 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491      TCGA-55-A492 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF      TCGA-55-A4DG 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-8394      TCGA-62-8395      TCGA-62-8397      TCGA-62-8398 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O      TCGA-62-A46P 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U      TCGA-62-A46V 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471      TCGA-62-A472 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5779      TCGA-64-5781      TCGA-64-5815 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-67-6215      TCGA-67-6216      TCGA-67-6217      TCGA-69-7760 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7765      TCGA-69-7973      TCGA-69-7974      TCGA-69-7978 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7979      TCGA-69-7980      TCGA-69-8253      TCGA-69-8254 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725      TCGA-71-8520 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7159 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC3 MUTATED        0      1      1
  CRTC3 WILD-TYPE     94    232     84
D335V12, multiclass
[1] "Remove cluster labels:" "CRTC3 MUTATED"         
clus
  CRTC3 MUTATED CRTC3 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4415      TCGA-05-4417      TCGA-05-4424      TCGA-05-4425 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-4427      TCGA-05-4433      TCGA-05-5420      TCGA-05-5423 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-05-5425      TCGA-05-5428      TCGA-05-5429      TCGA-05-5715 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-35-5375      TCGA-38-4631      TCGA-38-4632      TCGA-38-6178 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643      TCGA-44-5644 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-5645      TCGA-44-6144      TCGA-44-6145      TCGA-44-6146 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6147      TCGA-44-6148      TCGA-44-6774      TCGA-44-6775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-6776      TCGA-44-6777      TCGA-44-6778      TCGA-44-6779 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7660      TCGA-44-7661      TCGA-44-7662 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7667      TCGA-44-7669      TCGA-44-7670      TCGA-44-7671 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-7672      TCGA-44-8117      TCGA-44-8119      TCGA-44-8120 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F      TCGA-44-A47G 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487      TCGA-49-4488 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-4490      TCGA-49-4512      TCGA-49-4514      TCGA-49-6742 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6743      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5045      TCGA-50-5049 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5051      TCGA-50-5055      TCGA-50-5066      TCGA-50-5068 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5072      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5935      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-5946      TCGA-50-6590 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6591      TCGA-50-6592      TCGA-50-6593      TCGA-50-6594 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-6595      TCGA-50-6597      TCGA-50-6673      TCGA-50-7109 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-50-8457      TCGA-50-8459      TCGA-50-8460      TCGA-53-7624 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-53-7626      TCGA-53-7813      TCGA-53-A4EZ      TCGA-55-5899 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6642      TCGA-55-6712      TCGA-55-6968 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6969      TCGA-55-6970      TCGA-55-6971      TCGA-55-6972 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6980      TCGA-55-6981 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-6983      TCGA-55-6984      TCGA-55-6985 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-6986      TCGA-55-6987      TCGA-55-7227      TCGA-55-7281 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7283      TCGA-55-7284      TCGA-55-7570      TCGA-55-7573 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7574      TCGA-55-7576      TCGA-55-7724      TCGA-55-7726 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7727      TCGA-55-7728      TCGA-55-7815      TCGA-55-7816 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7903      TCGA-55-7907      TCGA-55-7910      TCGA-55-7911 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-7913      TCGA-55-7914      TCGA-55-7994      TCGA-55-8085 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8087      TCGA-55-8089      TCGA-55-8090      TCGA-55-8091 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8092      TCGA-55-8094      TCGA-55-8096      TCGA-55-8203 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8204      TCGA-55-8205      TCGA-55-8206      TCGA-55-8208 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8299      TCGA-55-8301      TCGA-55-8302      TCGA-55-8505 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8506      TCGA-55-8507      TCGA-55-8508      TCGA-55-8510 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8511      TCGA-55-8512      TCGA-55-8513      TCGA-55-8514 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8614      TCGA-55-8615      TCGA-55-8616      TCGA-55-8619 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X      TCGA-55-A48Y 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491      TCGA-55-A492 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF      TCGA-55-A4DG 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-8394      TCGA-62-8395      TCGA-62-8397      TCGA-62-8398 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O      TCGA-62-A46P 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U      TCGA-62-A46V 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471      TCGA-62-A472 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-1679      TCGA-64-1681      TCGA-64-5774      TCGA-64-5775 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5779      TCGA-64-5781      TCGA-64-5815 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-67-6215      TCGA-67-6216      TCGA-67-6217      TCGA-69-7760 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7765      TCGA-69-7973      TCGA-69-7974      TCGA-69-7978 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-7979      TCGA-69-7980      TCGA-69-8253      TCGA-69-8254 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725      TCGA-71-8520 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7159 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"CRTC3 WILD-TYPE" "CRTC3 WILD-TYPE" 

Clustering(336) Variable = COL5A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL5A3 MUTATED        1      1      0      0
  COL5A3 WILD-TYPE      4      6      5      3
D336V1, multiclass
[1] "Remove cluster labels:" "COL5A3 MUTATED"        
clus
  COL5A3 MUTATED COL5A3 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4250       TCGA-35-4122       TCGA-35-4123 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-55-1592       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A3 MUTATED        0      1      1
  COL5A3 WILD-TYPE      7      8      3
D336V2, multiclass
[1] "Remove cluster labels:" "COL5A3 MUTATED"        
clus
  COL5A3 MUTATED COL5A3 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4250       TCGA-35-4122       TCGA-35-4123 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-55-1592       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"COL5A3 WILD-TYPE" "COL5A3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  COL5A3 MUTATED        2      6      3      9
  COL5A3 WILD-TYPE     63    204     69    122
D336V3, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6              204
  CLUS_3              3               69
  CLUS_4              9              122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A3 MUTATED        4      6      6
  COL5A3 WILD-TYPE    127    132    155
D336V4, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              6              132
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A3 MUTATED        3      2      1
  COL5A3 WILD-TYPE     39     69     62
D336V5, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2               69
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  COL5A3 MUTATED        2      1      1      0      2
  COL5A3 WILD-TYPE     37     31     42     30     30
D336V6, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              2               37
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A3 MUTATED        5     12      3
  COL5A3 WILD-TYPE    145    173    140
D336V7, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              5              145
  CLUS_2             12              173
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  COL5A3 MUTATED        5      6      6      0      1      2      0
  COL5A3 WILD-TYPE     67    103     84     44     48     44     68
D336V8, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              5               67
  CLUS_2              6              103
  CLUS_3              6               84
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              0               68
[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
  COL5A3 MUTATED        4     13      3
  COL5A3 WILD-TYPE    171    198     87
D336V9, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              4              171
  CLUS_2             13              198
  CLUS_3              3               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
  COL5A3 MUTATED        1      8      6      5
  COL5A3 WILD-TYPE     69    178    125     84
D336V10, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              8              178
  CLUS_3              6              125
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  COL5A3 MUTATED        1      9      4
  COL5A3 WILD-TYPE    140    173     85
D336V11, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              1              140
  CLUS_2              9              173
  CLUS_3              4               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
  COL5A3 MUTATED        1     12      1
  COL5A3 WILD-TYPE     93    221     84
D336V12, multiclass
        clus
vv       COL5A3 MUTATED COL5A3 WILD-TYPE
  CLUS_1              1               93
  CLUS_2             12              221
  CLUS_3              1               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"

Clustering(337) Variable = SF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SF1 MUTATED        0      0      0      0
  SF1 WILD-TYPE      5      7      5      3
D337V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        0      0      0
  SF1 WILD-TYPE      7      9      4
D337V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SF1 MUTATED        2      3      4      2
  SF1 WILD-TYPE     63    207     68    129
D337V3, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           2            63
  CLUS_2           3           207
  CLUS_3           4            68
  CLUS_4           2           129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        0      6      4
  SF1 WILD-TYPE    131    132    157
D337V4, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           0           131
  CLUS_2           6           132
  CLUS_3           4           157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        0      1      0
  SF1 WILD-TYPE     42     70     63
D337V5, multiclass
[1] "Remove cluster labels:" "SF1 MUTATED"           
clus
  SF1 MUTATED SF1 WILD-TYPE 
            1           175 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4398    TCGA-05-4402 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-05-4405    TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423    TCGA-05-5429 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178    TCGA-44-2656 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396    TCGA-44-3919 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6146    TCGA-44-6147 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777    TCGA-44-6779 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-7659    TCGA-44-7662    TCGA-44-7670    TCGA-44-7671    TCGA-44-7672 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-4486    TCGA-49-4487    TCGA-49-4488    TCGA-49-4494    TCGA-49-4501 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-4505    TCGA-49-4506    TCGA-49-4507    TCGA-49-4510    TCGA-49-4512 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-4514    TCGA-49-6742    TCGA-49-6744    TCGA-49-6745    TCGA-49-6761 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-6767    TCGA-50-5044    TCGA-50-5049    TCGA-50-5051    TCGA-50-5068 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-50-5072    TCGA-50-5931    TCGA-50-5932    TCGA-50-5933    TCGA-50-5936 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-50-5939    TCGA-50-5941    TCGA-50-5942    TCGA-50-5944    TCGA-50-6593 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-50-6595    TCGA-50-6597    TCGA-50-6673    TCGA-50-7109    TCGA-53-7626 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-53-7813    TCGA-55-1592    TCGA-55-6543    TCGA-55-6712    TCGA-55-6970 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-55-6971    TCGA-55-6978    TCGA-55-6979    TCGA-55-6981    TCGA-55-6982 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-55-7573    TCGA-55-7574    TCGA-55-7728    TCGA-55-7815    TCGA-55-7911 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-64-1676    TCGA-64-1677    TCGA-64-1679    TCGA-64-1681    TCGA-64-5774 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-64-5778    TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-67-6217    TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-69-7765    TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-73-4676    TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-75-6205    TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-75-7027    TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7147    TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7153    TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7159    TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7166    TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7539    TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-80-5608    TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-91-6829    TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-91-7771    TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-95-7947    TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-97-7554    TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SF1 MUTATED        0      1      0      0      0
  SF1 WILD-TYPE     39     31     43     30     32
D337V6, multiclass
[1] "Remove cluster labels:" "SF1 MUTATED"           
clus
  SF1 MUTATED SF1 WILD-TYPE 
            1           175 
   TCGA-05-4249    TCGA-05-4384    TCGA-05-4396    TCGA-05-4398    TCGA-05-4402 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-05-4405    TCGA-05-4410    TCGA-05-4417    TCGA-05-4418    TCGA-05-4420 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-05-4426    TCGA-05-4430    TCGA-05-5420    TCGA-05-5423    TCGA-05-5429 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-05-5715    TCGA-38-4626    TCGA-38-4627    TCGA-38-6178    TCGA-44-2656 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3396    TCGA-44-3919 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-4112    TCGA-44-5645    TCGA-44-6145    TCGA-44-6146    TCGA-44-6147 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-6774    TCGA-44-6775    TCGA-44-6776    TCGA-44-6777    TCGA-44-6779 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-44-7659    TCGA-44-7662    TCGA-44-7670    TCGA-44-7671    TCGA-44-7672 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-4486    TCGA-49-4487    TCGA-49-4488    TCGA-49-4494    TCGA-49-4501 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-4505    TCGA-49-4506    TCGA-49-4507    TCGA-49-4510    TCGA-49-4512 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-4514    TCGA-49-6742    TCGA-49-6744    TCGA-49-6745    TCGA-49-6761 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-49-6767    TCGA-50-5044    TCGA-50-5049    TCGA-50-5051    TCGA-50-5068 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-50-5072    TCGA-50-5931    TCGA-50-5932    TCGA-50-5933    TCGA-50-5936 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-50-5939    TCGA-50-5941    TCGA-50-5942    TCGA-50-5944    TCGA-50-6593 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-50-6595    TCGA-50-6597    TCGA-50-6673    TCGA-50-7109    TCGA-53-7626 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-53-7813    TCGA-55-1592    TCGA-55-6543    TCGA-55-6712    TCGA-55-6970 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-55-6971    TCGA-55-6978    TCGA-55-6979    TCGA-55-6981    TCGA-55-6982 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-55-7573    TCGA-55-7574    TCGA-55-7728    TCGA-55-7815    TCGA-55-7911 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-64-1676    TCGA-64-1677    TCGA-64-1679    TCGA-64-1681    TCGA-64-5774 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-64-5778    TCGA-64-5781    TCGA-67-3771    TCGA-67-6215    TCGA-67-6216 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-67-6217    TCGA-69-7760    TCGA-69-7761    TCGA-69-7763    TCGA-69-7764 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-69-7765    TCGA-71-6725    TCGA-73-4658    TCGA-73-4659    TCGA-73-4675 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-73-4676    TCGA-73-7498    TCGA-73-7499    TCGA-75-5122    TCGA-75-6203 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-75-6205    TCGA-75-6207    TCGA-75-6211    TCGA-75-6212    TCGA-75-6214 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-75-7027    TCGA-75-7030    TCGA-75-7031    TCGA-78-7143    TCGA-78-7145 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7147    TCGA-78-7148    TCGA-78-7149    TCGA-78-7150    TCGA-78-7152 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7153    TCGA-78-7154    TCGA-78-7155    TCGA-78-7156    TCGA-78-7158 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7159    TCGA-78-7160    TCGA-78-7161    TCGA-78-7162    TCGA-78-7163 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7166    TCGA-78-7167    TCGA-78-7535    TCGA-78-7536    TCGA-78-7537 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-78-7539    TCGA-78-7540    TCGA-78-7542    TCGA-78-7633    TCGA-80-5607 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-80-5608    TCGA-86-6562    TCGA-86-6851    TCGA-86-7713    TCGA-91-6828 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-91-6829    TCGA-91-6835    TCGA-91-6840    TCGA-91-6847    TCGA-91-6849 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-91-7771    TCGA-93-7348    TCGA-95-7039    TCGA-95-7043    TCGA-95-7567 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-95-7947    TCGA-95-7948    TCGA-97-7546    TCGA-97-7552    TCGA-97-7553 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
   TCGA-97-7554    TCGA-97-7937    TCGA-97-7938    TCGA-97-7941    TCGA-99-7458 
"SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" "SF1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        2      4      6
  SF1 WILD-TYPE    148    181    137
D337V7, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           2           148
  CLUS_2           4           181
  CLUS_3           6           137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SF1 MUTATED        1      4      3      1      2      1      0
  SF1 WILD-TYPE     71    105     87     43     47     45     68
D337V8, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           1            71
  CLUS_2           4           105
  CLUS_3           3            87
  CLUS_4           1            43
  CLUS_5           2            47
  CLUS_6           1            45
  CLUS_7           0            68
[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
  SF1 MUTATED        2      8      2
  SF1 WILD-TYPE    173    203     88
D337V9, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           2           173
  CLUS_2           8           203
  CLUS_3           2            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
  SF1 MUTATED        1      8      1      2
  SF1 WILD-TYPE     69    178    130     87
D337V10, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           1            69
  CLUS_2           8           178
  CLUS_3           1           130
  CLUS_4           2            87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SF1 MUTATED        5      1      3
  SF1 WILD-TYPE    136    181     86
D337V11, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           5           136
  CLUS_2           1           181
  CLUS_3           3            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
  SF1 MUTATED        0      8      1
  SF1 WILD-TYPE     94    225     84
D337V12, multiclass
        clus
vv       SF1 MUTATED SF1 WILD-TYPE
  CLUS_1           0            94
  CLUS_2           8           225
  CLUS_3           1            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"

Clustering(338) Variable = ZCCHC11 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZCCHC11 MUTATED        0      0      0      0
  ZCCHC11 WILD-TYPE      5      7      5      3
D338V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZCCHC11 MUTATED        0      0      0
  ZCCHC11 WILD-TYPE      7      9      4
D338V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZCCHC11 MUTATED        1      3      4      4
  ZCCHC11 WILD-TYPE     64    207     68    127
D338V3, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               3               207
  CLUS_3               4                68
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZCCHC11 MUTATED        2      6      3
  ZCCHC11 WILD-TYPE    129    132    158
D338V4, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               6               132
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZCCHC11 MUTATED        1      2      1
  ZCCHC11 WILD-TYPE     41     69     62
D338V5, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2                69
  CLUS_3               1                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZCCHC11 MUTATED        0      1      3      0      0
  ZCCHC11 WILD-TYPE     39     31     40     30     32
D338V6, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                31
  CLUS_3               3                40
  CLUS_4               0                30
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZCCHC11 MUTATED        1      6      5
  ZCCHC11 WILD-TYPE    149    179    138
D338V7, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               6               179
  CLUS_3               5               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZCCHC11 MUTATED        0      3      0      1      3      4      1
  ZCCHC11 WILD-TYPE     72    106     90     43     46     42     67
D338V8, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               0                90
  CLUS_4               1                43
  CLUS_5               3                46
  CLUS_6               4                42
  CLUS_7               1                67
[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
  ZCCHC11 MUTATED        4      6      2
  ZCCHC11 WILD-TYPE    171    205     88
D338V9, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               4               171
  CLUS_2               6               205
  CLUS_3               2                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
  ZCCHC11 MUTATED        2      7      1      2
  ZCCHC11 WILD-TYPE     68    179    130     87
D338V10, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               7               179
  CLUS_3               1               130
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZCCHC11 MUTATED        2      7      2
  ZCCHC11 WILD-TYPE    139    175     87
D338V11, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               7               175
  CLUS_3               2                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
  ZCCHC11 MUTATED        3      6      2
  ZCCHC11 WILD-TYPE     91    227     83
D338V12, multiclass
        clus
vv       ZCCHC11 MUTATED ZCCHC11 WILD-TYPE
  CLUS_1               3                91
  CLUS_2               6               227
  CLUS_3               2                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"

Clustering(339) Variable = AIFM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AIFM1 MUTATED        0      0      0      0
  AIFM1 WILD-TYPE      5      7      5      3
D339V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        0      0      0
  AIFM1 WILD-TYPE      7      9      4
D339V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AIFM1 MUTATED        2      5      1      5
  AIFM1 WILD-TYPE     63    205     71    126
D339V3, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             5             205
  CLUS_3             1              71
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        3      3      7
  AIFM1 WILD-TYPE    128    135    154
D339V4, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             7             154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        1      0      3
  AIFM1 WILD-TYPE     41     71     60
D339V5, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0              71
  CLUS_3             3              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
  AIFM1 MUTATED        0      1      1      1      1
  AIFM1 WILD-TYPE     39     31     42     29     31
D339V6, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        5      4      4
  AIFM1 WILD-TYPE    145    181    139
D339V7, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             5             145
  CLUS_2             4             181
  CLUS_3             4             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AIFM1 MUTATED        3      2      1      1      3      1      2
  AIFM1 WILD-TYPE     69    107     89     43     46     45     66
D339V8, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             2             107
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             3              46
  CLUS_6             1              45
  CLUS_7             2              66
[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
  AIFM1 MUTATED        3      7      3
  AIFM1 WILD-TYPE    172    204     87
D339V9, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3             172
  CLUS_2             7             204
  CLUS_3             3              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
  AIFM1 MUTATED        1      8      4      0
  AIFM1 WILD-TYPE     69    178    127     89
D339V10, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             8             178
  CLUS_3             4             127
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        1      7      5
  AIFM1 WILD-TYPE    140    175     84
D339V11, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             7             175
  CLUS_3             5              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
  AIFM1 MUTATED        3      7      3
  AIFM1 WILD-TYPE     91    226     82
D339V12, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3              91
  CLUS_2             7             226
  CLUS_3             3              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"

Clustering(340) Variable = DCAF8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCAF8 MUTATED        0      0      0      1
  DCAF8 WILD-TYPE      5      7      5      2
D340V1, multiclass
[1] "Remove cluster labels:" "DCAF8 MUTATED"         
clus
  DCAF8 MUTATED DCAF8 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF8 MUTATED        0      0      1
  DCAF8 WILD-TYPE      7      9      3
D340V2, multiclass
[1] "Remove cluster labels:" "DCAF8 MUTATED"         
clus
  DCAF8 MUTATED DCAF8 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-44-4112      TCGA-55-1592      TCGA-55-1595      TCGA-64-1676 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
     TCGA-64-1677      TCGA-67-3772      TCGA-67-3773 
"DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" "DCAF8 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DCAF8 MUTATED        2      4      1      5
  DCAF8 WILD-TYPE     63    206     71    126
D340V3, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4             206
  CLUS_3             1              71
  CLUS_4             5             126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF8 MUTATED        3      3      4
  DCAF8 WILD-TYPE    128    135    157
D340V4, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             3             135
  CLUS_3             4             157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF8 MUTATED        0      1      3
  DCAF8 WILD-TYPE     42     70     60
D340V5, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              70
  CLUS_3             3              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
  DCAF8 MUTATED        0      2      1      1      0
  DCAF8 WILD-TYPE     39     30     42     29     32
D340V6, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             2              30
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF8 MUTATED        0      7      5
  DCAF8 WILD-TYPE    150    178    138
D340V7, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             7             178
  CLUS_3             5             138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DCAF8 MUTATED        2      3      5      1      0      1      0
  DCAF8 WILD-TYPE     70    106     85     43     49     45     68
D340V8, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             2              70
  CLUS_2             3             106
  CLUS_3             5              85
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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
  DCAF8 MUTATED        1     10      1
  DCAF8 WILD-TYPE    174    201     89
D340V9, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             1             174
  CLUS_2            10             201
  CLUS_3             1              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
  DCAF8 MUTATED        0      5      1      6
  DCAF8 WILD-TYPE     70    181    130     83
D340V10, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             5             181
  CLUS_3             1             130
  CLUS_4             6              83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DCAF8 MUTATED        5      4      1
  DCAF8 WILD-TYPE    136    178     88
D340V11, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             5             136
  CLUS_2             4             178
  CLUS_3             1              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
  DCAF8 MUTATED        1      7      2
  DCAF8 WILD-TYPE     93    226     83
D340V12, multiclass
        clus
vv       DCAF8 MUTATED DCAF8 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             7             226
  CLUS_3             2              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"

Clustering(341) Variable = PPP2R2A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R2A MUTATED        0      0      0      0
  PPP2R2A WILD-TYPE      5      7      5      3
D341V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2A MUTATED        0      0      0
  PPP2R2A WILD-TYPE      7      9      4
D341V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R2A MUTATED        0      1      2      3
  PPP2R2A WILD-TYPE     65    209     70    128
D341V3, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               0                65
  CLUS_2               1               209
  CLUS_3               2                70
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2A MUTATED        0      0      5
  PPP2R2A WILD-TYPE    131    138    156
D341V4, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               0               131
  CLUS_2               0               138
  CLUS_3               5               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2A MUTATED        0      1      0
  PPP2R2A WILD-TYPE     42     70     63
D341V5, multiclass
[1] "Remove cluster labels:" "PPP2R2A MUTATED"       
clus
  PPP2R2A MUTATED PPP2R2A WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4402 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-05-4405        TCGA-05-4410        TCGA-05-4417        TCGA-05-4418 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-05-4420        TCGA-05-4422        TCGA-05-4426        TCGA-05-4430 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-05-5420        TCGA-05-5423        TCGA-05-5429        TCGA-05-5715 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-38-4626        TCGA-38-4627        TCGA-38-6178        TCGA-44-2656 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-2657        TCGA-44-2661        TCGA-44-2665        TCGA-44-3396 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-3919        TCGA-44-4112        TCGA-44-5645        TCGA-44-6145 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-6146        TCGA-44-6147        TCGA-44-6774        TCGA-44-6775 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R2A MUTATED        0      0      1      0      0
  PPP2R2A WILD-TYPE     39     32     42     30     32
D341V6, multiclass
[1] "Remove cluster labels:" "PPP2R2A MUTATED"       
clus
  PPP2R2A MUTATED PPP2R2A WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4402 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-05-4405        TCGA-05-4410        TCGA-05-4417        TCGA-05-4418 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-05-4420        TCGA-05-4422        TCGA-05-4426        TCGA-05-4430 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-05-5420        TCGA-05-5423        TCGA-05-5429        TCGA-05-5715 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-38-4626        TCGA-38-4627        TCGA-38-6178        TCGA-44-2656 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-2657        TCGA-44-2661        TCGA-44-2665        TCGA-44-3396 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-3919        TCGA-44-4112        TCGA-44-5645        TCGA-44-6145 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-6146        TCGA-44-6147        TCGA-44-6774        TCGA-44-6775 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" "PPP2R2A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2A MUTATED        2      4      0
  PPP2R2A WILD-TYPE    148    181    143
D341V7, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               2               148
  CLUS_2               4               181
  CLUS_3               0               143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PPP2R2A MUTATED        1      3      1      0      0      0      1
  PPP2R2A WILD-TYPE     71    106     89     44     49     46     67
D341V8, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               1                71
  CLUS_2               3               106
  CLUS_3               1                89
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               0                46
  CLUS_7               1                67
[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
  PPP2R2A MUTATED        0      6      0
  PPP2R2A WILD-TYPE    175    205     90
D341V9, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               0               175
  CLUS_2               6               205
  CLUS_3               0                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
  PPP2R2A MUTATED        0      4      0      2
  PPP2R2A WILD-TYPE     70    182    131     87
D341V10, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               0                70
  CLUS_2               4               182
  CLUS_3               0               131
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R2A MUTATED        0      3      1
  PPP2R2A WILD-TYPE    141    179     88
D341V11, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               0               141
  CLUS_2               3               179
  CLUS_3               1                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
  PPP2R2A MUTATED        0      4      0
  PPP2R2A WILD-TYPE     94    229     85
D341V12, multiclass
        clus
vv       PPP2R2A MUTATED PPP2R2A WILD-TYPE
  CLUS_1               0                94
  CLUS_2               4               229
  CLUS_3               0                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"

Clustering(342) Variable = IRF6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRF6 MUTATED        0      0      0      0
  IRF6 WILD-TYPE      5      7      5      3
D342V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        0      0      0
  IRF6 WILD-TYPE      7      9      4
D342V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IRF6 MUTATED        1      3      3      2
  IRF6 WILD-TYPE     64    207     69    129
D342V3, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            3            207
  CLUS_3            3             69
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        1      4      3
  IRF6 WILD-TYPE    130    134    158
D342V4, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            4            134
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        0      1      0
  IRF6 WILD-TYPE     42     70     63
D342V5, multiclass
[1] "Remove cluster labels:" "IRF6 MUTATED"          
clus
  IRF6 MUTATED IRF6 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-64-1676     TCGA-64-1677 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  IRF6 MUTATED        1      0      0      0      0
  IRF6 WILD-TYPE     38     32     43     30     32
D342V6, multiclass
[1] "Remove cluster labels:" "IRF6 MUTATED"          
clus
  IRF6 MUTATED IRF6 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-64-1676     TCGA-64-1677 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"IRF6 WILD-TYPE" "IRF6 WILD-TYPE" "IRF6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        0      5      4
  IRF6 WILD-TYPE    150    180    139
D342V7, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            0            150
  CLUS_2            5            180
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IRF6 MUTATED        0      4      1      1      1      2      0
  IRF6 WILD-TYPE     72    105     89     43     48     44     68
D342V8, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            4            105
  CLUS_3            1             89
  CLUS_4            1             43
  CLUS_5            1             48
  CLUS_6            2             44
  CLUS_7            0             68
[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
  IRF6 MUTATED        2      7      0
  IRF6 WILD-TYPE    173    204     90
D342V9, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            7            204
  CLUS_3            0             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
  IRF6 MUTATED        1      3      1      4
  IRF6 WILD-TYPE     69    183    130     85
D342V10, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3            183
  CLUS_3            1            130
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IRF6 MUTATED        3      3      1
  IRF6 WILD-TYPE    138    179     88
D342V11, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            3            138
  CLUS_2            3            179
  CLUS_3            1             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
  IRF6 MUTATED        2      4      1
  IRF6 WILD-TYPE     92    229     84
D342V12, multiclass
        clus
vv       IRF6 MUTATED IRF6 WILD-TYPE
  CLUS_1            2             92
  CLUS_2            4            229
  CLUS_3            1             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"

Clustering(343) Variable = SIRPA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIRPA MUTATED        0      0      0      0
  SIRPA WILD-TYPE      5      7      5      3
D343V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRPA MUTATED        0      0      0
  SIRPA WILD-TYPE      7      9      4
D343V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIRPA MUTATED        2      4      0      4
  SIRPA WILD-TYPE     63    206     72    127
D343V3, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             2              63
  CLUS_2             4             206
  CLUS_3             0              72
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRPA MUTATED        2      2      5
  SIRPA WILD-TYPE    129    136    156
D343V4, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             2             129
  CLUS_2             2             136
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRPA MUTATED        0      3      3
  SIRPA WILD-TYPE     42     68     60
D343V5, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3              68
  CLUS_3             3              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
  SIRPA MUTATED        3      0      1      1      1
  SIRPA WILD-TYPE     36     32     42     29     31
D343V6, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             3              36
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRPA MUTATED        4      4      2
  SIRPA WILD-TYPE    146    181    141
D343V7, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             4             146
  CLUS_2             4             181
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SIRPA MUTATED        0      2      2      1      2      0      3
  SIRPA WILD-TYPE     72    107     88     43     47     46     65
D343V8, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             2              47
  CLUS_6             0              46
  CLUS_7             3              65
[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
  SIRPA MUTATED        4      3      3
  SIRPA WILD-TYPE    171    208     87
D343V9, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             4             171
  CLUS_2             3             208
  CLUS_3             3              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
  SIRPA MUTATED        2      3      4      1
  SIRPA WILD-TYPE     68    183    127     88
D343V10, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             4             127
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIRPA MUTATED        3      3      3
  SIRPA WILD-TYPE    138    179     86
D343V11, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             3              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
  SIRPA MUTATED        1      4      4
  SIRPA WILD-TYPE     93    229     81
D343V12, multiclass
        clus
vv       SIRPA MUTATED SIRPA WILD-TYPE
  CLUS_1             1              93
  CLUS_2             4             229
  CLUS_3             4              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"

Clustering(344) Variable = ANGPT4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANGPT4 MUTATED        0      0      0      0
  ANGPT4 WILD-TYPE      5      7      5      3
D344V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANGPT4 MUTATED        0      0      0
  ANGPT4 WILD-TYPE      7      9      4
D344V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANGPT4 MUTATED        1      5      2      3
  ANGPT4 WILD-TYPE     64    205     70    128
D344V3, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              5              205
  CLUS_3              2               70
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANGPT4 MUTATED        2      5      3
  ANGPT4 WILD-TYPE    129    133    158
D344V4, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              5              133
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANGPT4 MUTATED        0      0      0
  ANGPT4 WILD-TYPE     42     71     63
D344V5, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANGPT4 MUTATED        0      0      0      0      0
  ANGPT4 WILD-TYPE     39     32     43     30     32
D344V6, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANGPT4 MUTATED        4      4      3
  ANGPT4 WILD-TYPE    146    181    140
D344V7, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              4              146
  CLUS_2              4              181
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ANGPT4 MUTATED        0      3      3      1      2      1      1
  ANGPT4 WILD-TYPE     72    106     87     43     47     45     67
D344V8, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              3               87
  CLUS_4              1               43
  CLUS_5              2               47
  CLUS_6              1               45
  CLUS_7              1               67
[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
  ANGPT4 MUTATED        3      7      1
  ANGPT4 WILD-TYPE    172    204     89
D344V9, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              3              172
  CLUS_2              7              204
  CLUS_3              1               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
  ANGPT4 MUTATED        2      6      1      2
  ANGPT4 WILD-TYPE     68    180    130     87
D344V10, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              6              180
  CLUS_3              1              130
  CLUS_4              2               87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANGPT4 MUTATED        3      5      2
  ANGPT4 WILD-TYPE    138    177     87
D344V11, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              3              138
  CLUS_2              5              177
  CLUS_3              2               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
  ANGPT4 MUTATED        3      7      0
  ANGPT4 WILD-TYPE     91    226     85
D344V12, multiclass
        clus
vv       ANGPT4 MUTATED ANGPT4 WILD-TYPE
  CLUS_1              3               91
  CLUS_2              7              226
  CLUS_3              0               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"

Clustering(345) Variable = C12ORF71 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF71 MUTATED        0      1      0      0
  C12ORF71 WILD-TYPE      5      6      5      3
D345V1, multiclass
[1] "Remove cluster labels:" "C12ORF71 MUTATED"      
clus
  C12ORF71 MUTATED C12ORF71 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-3398         TCGA-44-3919         TCGA-44-4112 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-67-3773 
"C12ORF71 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF71 MUTATED        0      1      0
  C12ORF71 WILD-TYPE      7      8      4
D345V2, multiclass
[1] "Remove cluster labels:" "C12ORF71 MUTATED"      
clus
  C12ORF71 MUTATED C12ORF71 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-3398         TCGA-44-3919         TCGA-44-4112 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-67-3773 
"C12ORF71 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C12ORF71 MUTATED        2      1      1      4
  C12ORF71 WILD-TYPE     63    209     71    127
D345V3, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                2                 63
  CLUS_2                1                209
  CLUS_3                1                 71
  CLUS_4                4                127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF71 MUTATED        0      4      3
  C12ORF71 WILD-TYPE    131    134    158
D345V4, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                0                131
  CLUS_2                4                134
  CLUS_3                3                158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF71 MUTATED        1      1      0
  C12ORF71 WILD-TYPE     41     70     63
D345V5, multiclass
[1] "Remove cluster labels:" "C12ORF71 MUTATED"      
clus
  C12ORF71 MUTATED C12ORF71 WILD-TYPE 
                 2                174 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6744 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-6745         TCGA-49-6761         TCGA-49-6767 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5044         TCGA-50-5049         TCGA-50-5051 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5068         TCGA-50-5072         TCGA-50-5931 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5932         TCGA-50-5933         TCGA-50-5936 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5939         TCGA-50-5941         TCGA-50-5942 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5944         TCGA-50-6593         TCGA-50-6595 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-6597         TCGA-50-6673         TCGA-50-7109 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-53-7626         TCGA-53-7813         TCGA-55-1592 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-6543         TCGA-55-6712         TCGA-55-6970 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-6971         TCGA-55-6978         TCGA-55-6979 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-6981         TCGA-55-6982         TCGA-55-7573 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-7574         TCGA-55-7728         TCGA-55-7815 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-7911         TCGA-64-1676         TCGA-64-1677 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-64-1679         TCGA-64-1681         TCGA-64-5774 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-64-5778         TCGA-64-5781         TCGA-67-3771 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-67-6215         TCGA-67-6216         TCGA-67-6217 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-69-7760         TCGA-69-7761         TCGA-69-7763 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-69-7764         TCGA-69-7765         TCGA-71-6725 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-73-4658         TCGA-73-4659         TCGA-73-4675 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-73-4676         TCGA-73-7498         TCGA-73-7499 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-5122         TCGA-75-6203         TCGA-75-6205 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-6207         TCGA-75-6211         TCGA-75-6212 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-6214         TCGA-75-7027         TCGA-75-7030 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-7031         TCGA-78-7143         TCGA-78-7145 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7147         TCGA-78-7148         TCGA-78-7149 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7150         TCGA-78-7152         TCGA-78-7153 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7154         TCGA-78-7155         TCGA-78-7156 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7158         TCGA-78-7159         TCGA-78-7160 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7161         TCGA-78-7162         TCGA-78-7163 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7166         TCGA-78-7167         TCGA-78-7535 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7536         TCGA-78-7537         TCGA-78-7539 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7540         TCGA-78-7542         TCGA-78-7633 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-80-5607         TCGA-80-5608         TCGA-86-6562 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-86-6851         TCGA-86-7713         TCGA-91-6828 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-95-7948         TCGA-97-7546         TCGA-97-7552 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-97-7553         TCGA-97-7554         TCGA-97-7937 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-97-7938         TCGA-97-7941         TCGA-99-7458 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C12ORF71 MUTATED        0      0      1      1      0
  C12ORF71 WILD-TYPE     39     32     42     29     32
D345V6, multiclass
[1] "Remove cluster labels:" "C12ORF71 MUTATED"      
clus
  C12ORF71 MUTATED C12ORF71 WILD-TYPE 
                 2                174 
        TCGA-05-4249         TCGA-05-4384         TCGA-05-4396 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4398         TCGA-05-4402         TCGA-05-4405 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4410         TCGA-05-4417         TCGA-05-4418 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4420         TCGA-05-4422         TCGA-05-4426 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-4430         TCGA-05-5420         TCGA-05-5423 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-05-5429         TCGA-05-5715         TCGA-38-4626 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-38-4627         TCGA-38-6178         TCGA-44-2656 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-3396         TCGA-44-3919         TCGA-44-4112 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-5645         TCGA-44-6145         TCGA-44-6146 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-6147         TCGA-44-6774         TCGA-44-6775 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-6776         TCGA-44-6777         TCGA-44-6779 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-7659         TCGA-44-7662         TCGA-44-7670 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-44-7671         TCGA-44-7672         TCGA-49-4486 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4487         TCGA-49-4488         TCGA-49-4494 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4501         TCGA-49-4505         TCGA-49-4506 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4507         TCGA-49-4510         TCGA-49-4512 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-4514         TCGA-49-6742         TCGA-49-6744 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-49-6745         TCGA-49-6761         TCGA-49-6767 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5044         TCGA-50-5049         TCGA-50-5051 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5068         TCGA-50-5072         TCGA-50-5931 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5932         TCGA-50-5933         TCGA-50-5936 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5939         TCGA-50-5941         TCGA-50-5942 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-5944         TCGA-50-6593         TCGA-50-6595 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-50-6597         TCGA-50-6673         TCGA-50-7109 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-53-7626         TCGA-53-7813         TCGA-55-1592 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-6543         TCGA-55-6712         TCGA-55-6970 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-6971         TCGA-55-6978         TCGA-55-6979 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-6981         TCGA-55-6982         TCGA-55-7573 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-7574         TCGA-55-7728         TCGA-55-7815 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-55-7911         TCGA-64-1676         TCGA-64-1677 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-64-1679         TCGA-64-1681         TCGA-64-5774 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-64-5778         TCGA-64-5781         TCGA-67-3771 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-67-6215         TCGA-67-6216         TCGA-67-6217 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-69-7760         TCGA-69-7761         TCGA-69-7763 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-69-7764         TCGA-69-7765         TCGA-71-6725 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-73-4658         TCGA-73-4659         TCGA-73-4675 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-73-4676         TCGA-73-7498         TCGA-73-7499 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-5122         TCGA-75-6203         TCGA-75-6205 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-6207         TCGA-75-6211         TCGA-75-6212 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-6214         TCGA-75-7027         TCGA-75-7030 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-75-7031         TCGA-78-7143         TCGA-78-7145 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7147         TCGA-78-7148         TCGA-78-7149 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7150         TCGA-78-7152         TCGA-78-7153 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7154         TCGA-78-7155         TCGA-78-7156 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7158         TCGA-78-7159         TCGA-78-7160 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7161         TCGA-78-7162         TCGA-78-7163 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7166         TCGA-78-7167         TCGA-78-7535 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7536         TCGA-78-7537         TCGA-78-7539 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-78-7540         TCGA-78-7542         TCGA-78-7633 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-80-5607         TCGA-80-5608         TCGA-86-6562 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-86-6851         TCGA-86-7713         TCGA-91-6828 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-91-6835         TCGA-91-6840         TCGA-91-6847 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-91-6849         TCGA-91-7771         TCGA-93-7348 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-95-7039         TCGA-95-7043         TCGA-95-7567 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-95-7948         TCGA-97-7546         TCGA-97-7552 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-97-7553         TCGA-97-7554         TCGA-97-7937 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
        TCGA-97-7938         TCGA-97-7941         TCGA-99-7458 
"C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" "C12ORF71 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF71 MUTATED        2      5      1
  C12ORF71 WILD-TYPE    148    180    142
D345V7, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                2                148
  CLUS_2                5                180
  CLUS_3                1                142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C12ORF71 MUTATED        0      2      5      0      1      0      0
  C12ORF71 WILD-TYPE     72    107     85     44     48     46     68
D345V8, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                0                 72
  CLUS_2                2                107
  CLUS_3                5                 85
  CLUS_4                0                 44
  CLUS_5                1                 48
  CLUS_6                0                 46
  CLUS_7                0                 68
[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
  C12ORF71 MUTATED        1      6      1
  C12ORF71 WILD-TYPE    174    205     89
D345V9, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                1                174
  CLUS_2                6                205
  CLUS_3                1                 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
  C12ORF71 MUTATED        0      2      1      5
  C12ORF71 WILD-TYPE     70    184    130     84
D345V10, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                184
  CLUS_3                1                130
  CLUS_4                5                 84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C12ORF71 MUTATED        2      4      0
  C12ORF71 WILD-TYPE    139    178     89
D345V11, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                2                139
  CLUS_2                4                178
  CLUS_3                0                 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
  C12ORF71 MUTATED        0      6      0
  C12ORF71 WILD-TYPE     94    227     85
D345V12, multiclass
        clus
vv       C12ORF71 MUTATED C12ORF71 WILD-TYPE
  CLUS_1                0                 94
  CLUS_2                6                227
  CLUS_3                0                 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"

Clustering(346) Variable = CAPG MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAPG MUTATED        0      0      0      0
  CAPG WILD-TYPE      5      7      5      3
D346V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CAPG MUTATED        0      0      0
  CAPG WILD-TYPE      7      9      4
D346V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CAPG MUTATED        1      2      1      2
  CAPG WILD-TYPE     64    208     71    129
D346V3, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            1             64
  CLUS_2            2            208
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CAPG MUTATED        2      3      1
  CAPG WILD-TYPE    129    135    160
D346V4, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            2            129
  CLUS_2            3            135
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CAPG MUTATED        0      0      0
  CAPG WILD-TYPE     42     71     63
D346V5, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CAPG MUTATED        0      0      0      0      0
  CAPG WILD-TYPE     39     32     43     30     32
D346V6, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CAPG MUTATED        0      4      2
  CAPG WILD-TYPE    150    181    141
D346V7, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            0            150
  CLUS_2            4            181
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CAPG MUTATED        0      3      2      0      0      1      0
  CAPG WILD-TYPE     72    106     88     44     49     45     68
D346V8, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            0             72
  CLUS_2            3            106
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            0             68
[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
  CAPG MUTATED        1      3      2
  CAPG WILD-TYPE    174    208     88
D346V9, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            1            174
  CLUS_2            3            208
  CLUS_3            2             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
  CAPG MUTATED        0      2      1      3
  CAPG WILD-TYPE     70    184    130     86
D346V10, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            0             70
  CLUS_2            2            184
  CLUS_3            1            130
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CAPG MUTATED        1      3      2
  CAPG WILD-TYPE    140    179     87
D346V11, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            1            140
  CLUS_2            3            179
  CLUS_3            2             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
  CAPG MUTATED        0      6      0
  CAPG WILD-TYPE     94    227     85
D346V12, multiclass
        clus
vv       CAPG MUTATED CAPG WILD-TYPE
  CLUS_1            0             94
  CLUS_2            6            227
  CLUS_3            0             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"

Clustering(347) Variable = PCDHGA6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA6 MUTATED        0      0      0      0
  PCDHGA6 WILD-TYPE      5      7      5      3
D347V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA6 MUTATED        0      0      0
  PCDHGA6 WILD-TYPE      7      9      4
D347V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA6 MUTATED        5      5      7      9
  PCDHGA6 WILD-TYPE     60    205     65    122
D347V3, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               5                60
  CLUS_2               5               205
  CLUS_3               7                65
  CLUS_4               9               122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA6 MUTATED        6     10      8
  PCDHGA6 WILD-TYPE    125    128    153
D347V4, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               6               125
  CLUS_2              10               128
  CLUS_3               8               153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA6 MUTATED        2      1      3
  PCDHGA6 WILD-TYPE     40     70     60
D347V5, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1                70
  CLUS_3               3                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
  PCDHGA6 MUTATED        1      3      1      1      0
  PCDHGA6 WILD-TYPE     38     29     42     29     32
D347V6, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               3                29
  CLUS_3               1                42
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA6 MUTATED        5     12      9
  PCDHGA6 WILD-TYPE    145    173    134
D347V7, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               5               145
  CLUS_2              12               173
  CLUS_3               9               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHGA6 MUTATED        2      5      8      2      4      5      0
  PCDHGA6 WILD-TYPE     70    104     82     42     45     41     68
D347V8, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               2                70
  CLUS_2               5               104
  CLUS_3               8                82
  CLUS_4               2                42
  CLUS_5               4                45
  CLUS_6               5                41
  CLUS_7               0                68
[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
  PCDHGA6 MUTATED        5     17      4
  PCDHGA6 WILD-TYPE    170    194     86
D347V9, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               5               170
  CLUS_2              17               194
  CLUS_3               4                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
  PCDHGA6 MUTATED        3     13      3      7
  PCDHGA6 WILD-TYPE     67    173    128     82
D347V10, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               3                67
  CLUS_2              13               173
  CLUS_3               3               128
  CLUS_4               7                82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA6 MUTATED        9     11      4
  PCDHGA6 WILD-TYPE    132    171     85
D347V11, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               9               132
  CLUS_2              11               171
  CLUS_3               4                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
  PCDHGA6 MUTATED        3     20      1
  PCDHGA6 WILD-TYPE     91    213     84
D347V12, multiclass
        clus
vv       PCDHGA6 MUTATED PCDHGA6 WILD-TYPE
  CLUS_1               3                91
  CLUS_2              20               213
  CLUS_3               1                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"

Clustering(348) Variable = ALPP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALPP MUTATED        0      0      0      0
  ALPP WILD-TYPE      5      7      5      3
D348V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALPP MUTATED        0      0      0
  ALPP WILD-TYPE      7      9      4
D348V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ALPP MUTATED        0      3      5      3
  ALPP WILD-TYPE     65    207     67    128
D348V3, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            0             65
  CLUS_2            3            207
  CLUS_3            5             67
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALPP MUTATED        2      5      2
  ALPP WILD-TYPE    129    133    159
D348V4, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            2            129
  CLUS_2            5            133
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALPP MUTATED        0      1      2
  ALPP WILD-TYPE     42     70     61
D348V5, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            0             42
  CLUS_2            1             70
  CLUS_3            2             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
  ALPP MUTATED        0      0      1      2      0
  ALPP WILD-TYPE     39     32     42     28     32
D348V6, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            1             42
  CLUS_4            2             28
  CLUS_5            0             32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALPP MUTATED        1      7      3
  ALPP WILD-TYPE    149    178    140
D348V7, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            1            149
  CLUS_2            7            178
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ALPP MUTATED        1      2      4      0      0      3      1
  ALPP WILD-TYPE     71    107     86     44     49     43     67
D348V8, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            1             71
  CLUS_2            2            107
  CLUS_3            4             86
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            3             43
  CLUS_7            1             67
[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
  ALPP MUTATED        0      8      3
  ALPP WILD-TYPE    175    203     87
D348V9, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            0            175
  CLUS_2            8            203
  CLUS_3            3             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
  ALPP MUTATED        0     10      1      0
  ALPP WILD-TYPE     70    176    130     89
D348V10, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            0             70
  CLUS_2           10            176
  CLUS_3            1            130
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ALPP MUTATED        1      5      2
  ALPP WILD-TYPE    140    177     87
D348V11, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            1            140
  CLUS_2            5            177
  CLUS_3            2             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
  ALPP MUTATED        2      6      0
  ALPP WILD-TYPE     92    227     85
D348V12, multiclass
        clus
vv       ALPP MUTATED ALPP WILD-TYPE
  CLUS_1            2             92
  CLUS_2            6            227
  CLUS_3            0             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"

Clustering(349) Variable = ADCY6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADCY6 MUTATED        1      1      0      0
  ADCY6 WILD-TYPE      4      6      5      3
D349V1, multiclass
[1] "Remove cluster labels:" "ADCY6 MUTATED"         
clus
  ADCY6 MUTATED ADCY6 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-55-1592      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY6 MUTATED        1      0      1
  ADCY6 WILD-TYPE      6      9      3
D349V2, multiclass
[1] "Remove cluster labels:" "ADCY6 MUTATED"         
clus
  ADCY6 MUTATED ADCY6 WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-44-3398      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-55-1592      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"ADCY6 WILD-TYPE" "ADCY6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADCY6 MUTATED        1      2      1      1
  ADCY6 WILD-TYPE     64    208     71    130
D349V3, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             2             208
  CLUS_3             1              71
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY6 MUTATED        2      0      2
  ADCY6 WILD-TYPE    129    138    159
D349V4, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             0             138
  CLUS_3             2             159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY6 MUTATED        0      3      1
  ADCY6 WILD-TYPE     42     68     62
D349V5, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             3              68
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ADCY6 MUTATED        1      2      0      1      0
  ADCY6 WILD-TYPE     38     30     43     29     32
D349V6, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              30
  CLUS_3             0              43
  CLUS_4             1              29
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY6 MUTATED        0      3      2
  ADCY6 WILD-TYPE    150    182    141
D349V7, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             3             182
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADCY6 MUTATED        0      2      0      0      2      1      0
  ADCY6 WILD-TYPE     72    107     90     44     47     45     68
D349V8, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             0              90
  CLUS_4             0              44
  CLUS_5             2              47
  CLUS_6             1              45
  CLUS_7             0              68
[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
  ADCY6 MUTATED        1      3      1
  ADCY6 WILD-TYPE    174    208     89
D349V9, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             1             174
  CLUS_2             3             208
  CLUS_3             1              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
  ADCY6 MUTATED        2      3      0      0
  ADCY6 WILD-TYPE     68    183    131     89
D349V10, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             3             183
  CLUS_3             0             131
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ADCY6 MUTATED        0      0      3
  ADCY6 WILD-TYPE    141    182     86
D349V11, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             0             141
  CLUS_2             0             182
  CLUS_3             3              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
  ADCY6 MUTATED        0      2      1
  ADCY6 WILD-TYPE     94    231     84
D349V12, multiclass
        clus
vv       ADCY6 MUTATED ADCY6 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             2             231
  CLUS_3             1              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"

Clustering(350) Variable = GOLGA6B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLGA6B MUTATED        0      0      0      0
  GOLGA6B WILD-TYPE      5      7      5      3
D350V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLGA6B MUTATED        0      0      0
  GOLGA6B WILD-TYPE      7      9      4
D350V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLGA6B MUTATED        2      5      2      1
  GOLGA6B WILD-TYPE     63    205     70    130
D350V3, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               2                63
  CLUS_2               5               205
  CLUS_3               2                70
  CLUS_4               1               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLGA6B MUTATED        4      2      4
  GOLGA6B WILD-TYPE    127    136    157
D350V4, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               4               127
  CLUS_2               2               136
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLGA6B MUTATED        1      2      2
  GOLGA6B WILD-TYPE     41     69     61
D350V5, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2                69
  CLUS_3               2                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
  GOLGA6B MUTATED        0      2      2      1      0
  GOLGA6B WILD-TYPE     39     30     41     29     32
D350V6, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               0                39
  CLUS_2               2                30
  CLUS_3               2                41
  CLUS_4               1                29
  CLUS_5               0                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLGA6B MUTATED        3      4      3
  GOLGA6B WILD-TYPE    147    181    140
D350V7, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               3               147
  CLUS_2               4               181
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GOLGA6B MUTATED        0      4      1      1      2      1      1
  GOLGA6B WILD-TYPE     72    105     89     43     47     45     67
D350V8, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               0                72
  CLUS_2               4               105
  CLUS_3               1                89
  CLUS_4               1                43
  CLUS_5               2                47
  CLUS_6               1                45
  CLUS_7               1                67
[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
  GOLGA6B MUTATED        2      7      1
  GOLGA6B WILD-TYPE    173    204     89
D350V9, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               2               173
  CLUS_2               7               204
  CLUS_3               1                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
  GOLGA6B MUTATED        1      5      1      3
  GOLGA6B WILD-TYPE     69    181    130     86
D350V10, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5               181
  CLUS_3               1               130
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GOLGA6B MUTATED        3      4      3
  GOLGA6B WILD-TYPE    138    178     86
D350V11, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               3               138
  CLUS_2               4               178
  CLUS_3               3                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
  GOLGA6B MUTATED        1      9      0
  GOLGA6B WILD-TYPE     93    224     85
D350V12, multiclass
        clus
vv       GOLGA6B MUTATED GOLGA6B WILD-TYPE
  CLUS_1               1                93
  CLUS_2               9               224
  CLUS_3               0                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"

Clustering(351) Variable = TMEM135 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM135 MUTATED        0      0      0      0
  TMEM135 WILD-TYPE      5      7      5      3
D351V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM135 MUTATED        0      0      0
  TMEM135 WILD-TYPE      7      9      4
D351V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM135 MUTATED        1      4      1      3
  TMEM135 WILD-TYPE     64    206     71    128
D351V3, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               4               206
  CLUS_3               1                71
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM135 MUTATED        2      3      3
  TMEM135 WILD-TYPE    129    135    158
D351V4, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               2               129
  CLUS_2               3               135
  CLUS_3               3               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM135 MUTATED        0      1      0
  TMEM135 WILD-TYPE     42     70     63
D351V5, multiclass
[1] "Remove cluster labels:" "TMEM135 MUTATED"       
clus
  TMEM135 MUTATED TMEM135 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6774        TCGA-44-6775 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM135 MUTATED        1      0      0      0      0
  TMEM135 WILD-TYPE     38     32     43     30     32
D351V6, multiclass
[1] "Remove cluster labels:" "TMEM135 MUTATED"       
clus
  TMEM135 MUTATED TMEM135 WILD-TYPE 
                1               175 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6774        TCGA-44-6775 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-6776        TCGA-44-6777        TCGA-44-6779        TCGA-44-7659 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-44-7662        TCGA-44-7670        TCGA-44-7671        TCGA-44-7672 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-4486        TCGA-49-4487        TCGA-49-4488        TCGA-49-4494 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-4501        TCGA-49-4505        TCGA-49-4506        TCGA-49-4507 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-4510        TCGA-49-4512        TCGA-49-4514        TCGA-49-6742 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-49-6744        TCGA-49-6745        TCGA-49-6761        TCGA-49-6767 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5044        TCGA-50-5049        TCGA-50-5051        TCGA-50-5068 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5072        TCGA-50-5931        TCGA-50-5932        TCGA-50-5933 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5936        TCGA-50-5939        TCGA-50-5941        TCGA-50-5942 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-5944        TCGA-50-6593        TCGA-50-6595        TCGA-50-6597 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-50-6673        TCGA-50-7109        TCGA-53-7626        TCGA-53-7813 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-1592        TCGA-55-6543        TCGA-55-6712        TCGA-55-6970 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7039        TCGA-95-7043 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-95-7567        TCGA-95-7947        TCGA-95-7948        TCGA-97-7546 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-97-7552        TCGA-97-7553        TCGA-97-7554        TCGA-97-7937 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
       TCGA-97-7938        TCGA-97-7941        TCGA-99-7458 
"TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" "TMEM135 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM135 MUTATED        1      5      3
  TMEM135 WILD-TYPE    149    180    140
D351V7, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               1               149
  CLUS_2               5               180
  CLUS_3               3               140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TMEM135 MUTATED        0      3      2      0      2      1      1
  TMEM135 WILD-TYPE     72    106     88     44     47     45     67
D351V8, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               3               106
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               2                47
  CLUS_6               1                45
  CLUS_7               1                67
[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
  TMEM135 MUTATED        2      5      2
  TMEM135 WILD-TYPE    173    206     88
D351V9, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               2               173
  CLUS_2               5               206
  CLUS_3               2                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
  TMEM135 MUTATED        1      2      2      4
  TMEM135 WILD-TYPE     69    184    129     85
D351V10, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               2               184
  CLUS_3               2               129
  CLUS_4               4                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM135 MUTATED        2      5      1
  TMEM135 WILD-TYPE    139    177     88
D351V11, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               5               177
  CLUS_3               1                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
  TMEM135 MUTATED        0      7      1
  TMEM135 WILD-TYPE     94    226     84
D351V12, multiclass
        clus
vv       TMEM135 MUTATED TMEM135 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               7               226
  CLUS_3               1                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"

Clustering(352) Variable = MSR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSR1 MUTATED        0      1      0      0
  MSR1 WILD-TYPE      5      6      5      3
D352V1, multiclass
[1] "Remove cluster labels:" "MSR1 MUTATED"          
clus
  MSR1 MUTATED MSR1 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSR1 MUTATED        0      1      0
  MSR1 WILD-TYPE      7      8      4
D352V2, multiclass
[1] "Remove cluster labels:" "MSR1 MUTATED"          
clus
  MSR1 MUTATED MSR1 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2657     TCGA-44-2661 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSR1 MUTATED        0      5      1      2
  MSR1 WILD-TYPE     65    205     71    129
D352V3, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            5            205
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSR1 MUTATED        0      4      3
  MSR1 WILD-TYPE    131    134    158
D352V4, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            0            131
  CLUS_2            4            134
  CLUS_3            3            158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSR1 MUTATED        0      1      0
  MSR1 WILD-TYPE     42     70     63
D352V5, multiclass
[1] "Remove cluster labels:" "MSR1 MUTATED"          
clus
  MSR1 MUTATED MSR1 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-69-7765     TCGA-71-6725 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4675     TCGA-73-4676 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-6203 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7147     TCGA-78-7148 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7535 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-80-5607     TCGA-80-5608 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-86-6562     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSR1 MUTATED        0      0      1      0      0
  MSR1 WILD-TYPE     39     32     42     30     32
D352V6, multiclass
[1] "Remove cluster labels:" "MSR1 MUTATED"          
clus
  MSR1 MUTATED MSR1 WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-5944     TCGA-50-6593     TCGA-50-6595 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-53-7626 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-53-7813     TCGA-55-1592     TCGA-55-6543     TCGA-55-6712 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6978     TCGA-55-6979 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-6981     TCGA-55-6982     TCGA-55-7573     TCGA-55-7574 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-55-7728     TCGA-55-7815     TCGA-55-7911     TCGA-64-1676 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5781     TCGA-67-3771     TCGA-67-6215 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-67-6216     TCGA-67-6217     TCGA-69-7760     TCGA-69-7761 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-69-7763     TCGA-69-7764     TCGA-69-7765     TCGA-71-6725 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4659     TCGA-73-4675     TCGA-73-4676 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-6203 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7147     TCGA-78-7148 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7149     TCGA-78-7150     TCGA-78-7152     TCGA-78-7153 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7154     TCGA-78-7155     TCGA-78-7156     TCGA-78-7158 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7162 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7535 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-80-5607     TCGA-80-5608 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-86-6562     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"MSR1 WILD-TYPE" "MSR1 WILD-TYPE" "MSR1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSR1 MUTATED        3      2      3
  MSR1 WILD-TYPE    147    183    140
D352V7, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            3            147
  CLUS_2            2            183
  CLUS_3            3            140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MSR1 MUTATED        0      2      2      1      2      0      1
  MSR1 WILD-TYPE     72    107     88     43     47     46     67
D352V8, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            2             88
  CLUS_4            1             43
  CLUS_5            2             47
  CLUS_6            0             46
  CLUS_7            1             67
[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
  MSR1 MUTATED        2      4      2
  MSR1 WILD-TYPE    173    207     88
D352V9, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            2            173
  CLUS_2            4            207
  CLUS_3            2             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
  MSR1 MUTATED        1      4      1      2
  MSR1 WILD-TYPE     69    182    130     87
D352V10, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            4            182
  CLUS_3            1            130
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MSR1 MUTATED        0      6      1
  MSR1 WILD-TYPE    141    176     88
D352V11, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            0            141
  CLUS_2            6            176
  CLUS_3            1             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
  MSR1 MUTATED        1      6      0
  MSR1 WILD-TYPE     93    227     85
D352V12, multiclass
        clus
vv       MSR1 MUTATED MSR1 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            6            227
  CLUS_3            0             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"

Clustering(353) Variable = ZNF768 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF768 MUTATED        0      0      0      0
  ZNF768 WILD-TYPE      5      7      5      3
D353V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF768 MUTATED        0      0      0
  ZNF768 WILD-TYPE      7      9      4
D353V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF768 MUTATED        1      4      0      3
  ZNF768 WILD-TYPE     64    206     72    128
D353V3, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4              206
  CLUS_3              0               72
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF768 MUTATED        3      2      3
  ZNF768 WILD-TYPE    128    136    158
D353V4, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              2              136
  CLUS_3              3              158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF768 MUTATED        1      1      0
  ZNF768 WILD-TYPE     41     70     63
D353V5, multiclass
[1] "Remove cluster labels:" "ZNF768 MUTATED"        
clus
  ZNF768 MUTATED ZNF768 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5942 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF768 MUTATED        0      0      1      1      0
  ZNF768 WILD-TYPE     39     32     42     29     32
D353V6, multiclass
[1] "Remove cluster labels:" "ZNF768 MUTATED"        
clus
  ZNF768 MUTATED ZNF768 WILD-TYPE 
               2              174 
      TCGA-05-4249       TCGA-05-4384       TCGA-05-4396       TCGA-05-4398 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-4402       TCGA-05-4405       TCGA-05-4410       TCGA-05-4417 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-4418       TCGA-05-4420       TCGA-05-4422       TCGA-05-4426 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-4430       TCGA-05-5420       TCGA-05-5423       TCGA-05-5429 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-05-5715       TCGA-38-4626       TCGA-38-4627       TCGA-38-6178 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-3396       TCGA-44-3919       TCGA-44-4112       TCGA-44-5645 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-6145       TCGA-44-6146       TCGA-44-6147       TCGA-44-6774 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-6775       TCGA-44-6776       TCGA-44-6777       TCGA-44-6779 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-7659       TCGA-44-7662       TCGA-44-7670       TCGA-44-7671 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-44-7672       TCGA-49-4486       TCGA-49-4487       TCGA-49-4488 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-4494       TCGA-49-4501       TCGA-49-4505       TCGA-49-4506 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-4507       TCGA-49-4510       TCGA-49-4512       TCGA-49-4514 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-6742       TCGA-49-6744       TCGA-49-6745       TCGA-49-6761 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-49-6767       TCGA-50-5044       TCGA-50-5049       TCGA-50-5051 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-5068       TCGA-50-5072       TCGA-50-5931       TCGA-50-5932 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-5933       TCGA-50-5936       TCGA-50-5939       TCGA-50-5942 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-5944       TCGA-50-6593       TCGA-50-6595       TCGA-50-6597 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-50-6673       TCGA-50-7109       TCGA-53-7626       TCGA-53-7813 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-6543       TCGA-55-6712       TCGA-55-6970 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-6971       TCGA-55-6978       TCGA-55-6979       TCGA-55-6981 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-6982       TCGA-55-7573       TCGA-55-7574       TCGA-55-7728 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-55-7815       TCGA-55-7911       TCGA-64-1676       TCGA-64-1677 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-64-1679       TCGA-64-1681       TCGA-64-5774       TCGA-64-5778 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-64-5781       TCGA-67-3771       TCGA-67-6215       TCGA-67-6216 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-67-6217       TCGA-69-7760       TCGA-69-7761       TCGA-69-7763 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-69-7764       TCGA-69-7765       TCGA-71-6725       TCGA-73-4658 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-73-4659       TCGA-73-4675       TCGA-73-4676       TCGA-73-7498 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-73-7499       TCGA-75-5122       TCGA-75-6203       TCGA-75-6205 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-75-6207       TCGA-75-6211       TCGA-75-6212       TCGA-75-6214 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-75-7027       TCGA-75-7030       TCGA-75-7031       TCGA-78-7143 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7145       TCGA-78-7147       TCGA-78-7148       TCGA-78-7149 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7150       TCGA-78-7152       TCGA-78-7153       TCGA-78-7154 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7155       TCGA-78-7156       TCGA-78-7158       TCGA-78-7159 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7160       TCGA-78-7161       TCGA-78-7162       TCGA-78-7163 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7166       TCGA-78-7167       TCGA-78-7535       TCGA-78-7536 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7537       TCGA-78-7539       TCGA-78-7540       TCGA-78-7542 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-78-7633       TCGA-80-5607       TCGA-80-5608       TCGA-86-6562 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-86-6851       TCGA-86-7713       TCGA-91-6828       TCGA-91-6829 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-91-6835       TCGA-91-6840       TCGA-91-6847       TCGA-91-6849 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-91-7771       TCGA-93-7348       TCGA-95-7039       TCGA-95-7043 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-95-7567       TCGA-95-7948       TCGA-97-7546       TCGA-97-7552 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-97-7553       TCGA-97-7554       TCGA-97-7937       TCGA-97-7938 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
      TCGA-97-7941       TCGA-99-7458 
"ZNF768 WILD-TYPE" "ZNF768 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF768 MUTATED        2      4      2
  ZNF768 WILD-TYPE    148    181    141
D353V7, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              2              148
  CLUS_2              4              181
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF768 MUTATED        0      3      2      1      1      0      1
  ZNF768 WILD-TYPE     72    106     88     43     48     46     67
D353V8, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              3              106
  CLUS_3              2               88
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              1               67
[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
  ZNF768 MUTATED        4      4      0
  ZNF768 WILD-TYPE    171    207     90
D353V9, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              4              171
  CLUS_2              4              207
  CLUS_3              0               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
  ZNF768 MUTATED        2      4      1      1
  ZNF768 WILD-TYPE     68    182    130     88
D353V10, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              4              182
  CLUS_3              1              130
  CLUS_4              1               88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF768 MUTATED        2      4      2
  ZNF768 WILD-TYPE    139    178     87
D353V11, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              4              178
  CLUS_3              2               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
  ZNF768 MUTATED        1      7      0
  ZNF768 WILD-TYPE     93    226     85
D353V12, multiclass
        clus
vv       ZNF768 MUTATED ZNF768 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              7              226
  CLUS_3              0               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"

Clustering(354) Variable = UNC93A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UNC93A MUTATED        0      0      0      0
  UNC93A WILD-TYPE      5      7      5      3
D354V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UNC93A MUTATED        0      0      0
  UNC93A WILD-TYPE      7      9      4
D354V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  UNC93A MUTATED        0      3      4      2
  UNC93A WILD-TYPE     65    207     68    129
D354V3, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              0               65
  CLUS_2              3              207
  CLUS_3              4               68
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UNC93A MUTATED        1      4      2
  UNC93A WILD-TYPE    130    134    159
D354V4, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              1              130
  CLUS_2              4              134
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UNC93A MUTATED        0      1      3
  UNC93A WILD-TYPE     42     70     60
D354V5, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              0               42
  CLUS_2              1               70
  CLUS_3              3               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
  UNC93A MUTATED        0      2      0      2      0
  UNC93A WILD-TYPE     39     30     43     28     32
D354V6, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              0               39
  CLUS_2              2               30
  CLUS_3              0               43
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UNC93A MUTATED        0      6      3
  UNC93A WILD-TYPE    150    179    140
D354V7, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              0              150
  CLUS_2              6              179
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  UNC93A MUTATED        0      1      4      1      0      2      1
  UNC93A WILD-TYPE     72    108     86     43     49     44     67
D354V8, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              4               86
  CLUS_4              1               43
  CLUS_5              0               49
  CLUS_6              2               44
  CLUS_7              1               67
[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
  UNC93A MUTATED        2      6      1
  UNC93A WILD-TYPE    173    205     89
D354V9, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              2              173
  CLUS_2              6              205
  CLUS_3              1               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
  UNC93A MUTATED        1      4      1      3
  UNC93A WILD-TYPE     69    182    130     86
D354V10, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              4              182
  CLUS_3              1              130
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  UNC93A MUTATED        4      2      1
  UNC93A WILD-TYPE    137    180     88
D354V11, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              4              137
  CLUS_2              2              180
  CLUS_3              1               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
  UNC93A MUTATED        1      4      2
  UNC93A WILD-TYPE     93    229     83
D354V12, multiclass
        clus
vv       UNC93A MUTATED UNC93A WILD-TYPE
  CLUS_1              1               93
  CLUS_2              4              229
  CLUS_3              2               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"

Clustering(355) Variable = CACNA2D4 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA2D4 MUTATED        0      1      0      0
  CACNA2D4 WILD-TYPE      5      6      5      3
D355V1, multiclass
[1] "Remove cluster labels:" "CACNA2D4 MUTATED"      
clus
  CACNA2D4 MUTATED CACNA2D4 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-67-3773 
"CACNA2D4 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D4 MUTATED        0      1      0
  CACNA2D4 WILD-TYPE      7      8      4
D355V2, multiclass
[1] "Remove cluster labels:" "CACNA2D4 MUTATED"      
clus
  CACNA2D4 MUTATED CACNA2D4 WILD-TYPE 
                 1                 19 
        TCGA-05-4244         TCGA-05-4249         TCGA-05-4250 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-35-4122         TCGA-35-4123         TCGA-44-2656 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-44-2657         TCGA-44-2661         TCGA-44-2665 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-44-3918         TCGA-44-3919         TCGA-44-4112 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-55-1592         TCGA-55-1595         TCGA-64-1676 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-64-1677         TCGA-67-3771         TCGA-67-3772 
"CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" "CACNA2D4 WILD-TYPE" 
        TCGA-67-3773 
"CACNA2D4 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA2D4 MUTATED        4      8      5      7
  CACNA2D4 WILD-TYPE     61    202     67    124
D355V3, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                4                 61
  CLUS_2                8                202
  CLUS_3                5                 67
  CLUS_4                7                124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D4 MUTATED        6     10      7
  CACNA2D4 WILD-TYPE    125    128    154
D355V4, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                6                125
  CLUS_2               10                128
  CLUS_3                7                154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D4 MUTATED        1      2      0
  CACNA2D4 WILD-TYPE     41     69     63
D355V5, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                 69
  CLUS_3                0                 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 CLUS_4 CLUS_5
  CACNA2D4 MUTATED        0      0      2      0      1
  CACNA2D4 WILD-TYPE     39     32     41     30     31
D355V6, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                0                 32
  CLUS_3                2                 41
  CLUS_4                0                 30
  CLUS_5                1                 31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D4 MUTATED        5     11      8
  CACNA2D4 WILD-TYPE    145    174    135
D355V7, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                5                145
  CLUS_2               11                174
  CLUS_3                8                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CACNA2D4 MUTATED        1      5      8      3      2      2      3
  CACNA2D4 WILD-TYPE     71    104     82     41     47     44     65
D355V8, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                1                 71
  CLUS_2                5                104
  CLUS_3                8                 82
  CLUS_4                3                 41
  CLUS_5                2                 47
  CLUS_6                2                 44
  CLUS_7                3                 65
[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
  CACNA2D4 MUTATED        4     16      4
  CACNA2D4 WILD-TYPE    171    195     86
D355V9, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                4                171
  CLUS_2               16                195
  CLUS_3                4                 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
  CACNA2D4 MUTATED        1     12      2      9
  CACNA2D4 WILD-TYPE     69    174    129     80
D355V10, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                1                 69
  CLUS_2               12                174
  CLUS_3                2                129
  CLUS_4                9                 80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D4 MUTATED        1     15      7
  CACNA2D4 WILD-TYPE    140    167     82
D355V11, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                1                140
  CLUS_2               15                167
  CLUS_3                7                 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
  CACNA2D4 MUTATED        3     19      1
  CACNA2D4 WILD-TYPE     91    214     84
D355V12, multiclass
        clus
vv       CACNA2D4 MUTATED CACNA2D4 WILD-TYPE
  CLUS_1                3                 91
  CLUS_2               19                214
  CLUS_3                1                 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"

Clustering(356) Variable = KIRREL MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIRREL MUTATED        0      1      0      0
  KIRREL WILD-TYPE      5      6      5      3
D356V1, multiclass
[1] "Remove cluster labels:" "KIRREL MUTATED"        
clus
  KIRREL MUTATED KIRREL WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1677 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIRREL MUTATED        0      1      0
  KIRREL WILD-TYPE      7      8      4
D356V2, multiclass
[1] "Remove cluster labels:" "KIRREL MUTATED"        
clus
  KIRREL MUTATED KIRREL WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1677 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"KIRREL WILD-TYPE" "KIRREL WILD-TYPE" "KIRREL WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIRREL MUTATED        0      3      3     10
  KIRREL WILD-TYPE     65    207     69    121
D356V3, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              0               65
  CLUS_2              3              207
  CLUS_3              3               69
  CLUS_4             10              121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIRREL MUTATED        2      6      7
  KIRREL WILD-TYPE    129    132    154
D356V4, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              2              129
  CLUS_2              6              132
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIRREL MUTATED        0      2      3
  KIRREL WILD-TYPE     42     69     60
D356V5, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              0               42
  CLUS_2              2               69
  CLUS_3              3               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
  KIRREL MUTATED        1      0      2      2      0
  KIRREL WILD-TYPE     38     32     41     28     32
D356V6, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              2               28
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIRREL MUTATED        2     11      3
  KIRREL WILD-TYPE    148    174    140
D356V7, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              2              148
  CLUS_2             11              174
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KIRREL MUTATED        0      6      5      0      1      2      2
  KIRREL WILD-TYPE     72    103     85     44     48     44     66
D356V8, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              0               72
  CLUS_2              6              103
  CLUS_3              5               85
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              2               66
[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
  KIRREL MUTATED        1     11      4
  KIRREL WILD-TYPE    174    200     86
D356V9, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              1              174
  CLUS_2             11              200
  CLUS_3              4               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
  KIRREL MUTATED        0     12      1      3
  KIRREL WILD-TYPE     70    174    130     86
D356V10, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              0               70
  CLUS_2             12              174
  CLUS_3              1              130
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIRREL MUTATED        4      8      3
  KIRREL WILD-TYPE    137    174     86
D356V11, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              4              137
  CLUS_2              8              174
  CLUS_3              3               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
  KIRREL MUTATED        1     12      2
  KIRREL WILD-TYPE     93    221     83
D356V12, multiclass
        clus
vv       KIRREL MUTATED KIRREL WILD-TYPE
  CLUS_1              1               93
  CLUS_2             12              221
  CLUS_3              2               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"

Clustering(357) Variable = ZBTB5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB5 MUTATED        0      0      0      0
  ZBTB5 WILD-TYPE      5      7      5      3
D357V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZBTB5 MUTATED        0      0      0
  ZBTB5 WILD-TYPE      7      9      4
D357V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZBTB5 MUTATED        2      0      0      1
  ZBTB5 WILD-TYPE     63    210     72    130
D357V3, multiclass
        clus
vv       ZBTB5 MUTATED ZBTB5 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             0             210
  CLUS_3             0              72
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZBTB5 MUTATED        0      2      1
  ZBTB5 WILD-TYPE    131    136    160
D357V4, multiclass
        clus
vv       ZBTB5 MUTATED ZBTB5 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZBTB5 MUTATED        0      0      1
  ZBTB5 WILD-TYPE     42     71     62
D357V5, multiclass
[1] "Remove cluster labels:" "ZBTB5 MUTATED"         
clus
  ZBTB5 MUTATED ZBTB5 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZBTB5 MUTATED        0      0      1      0      0
  ZBTB5 WILD-TYPE     39     32     42     30     32
D357V6, multiclass
[1] "Remove cluster labels:" "ZBTB5 MUTATED"         
clus
  ZBTB5 MUTATED ZBTB5 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZBTB5 MUTATED        0      1      2
  ZBTB5 WILD-TYPE    150    184    141
D357V7, multiclass
        clus
vv       ZBTB5 MUTATED ZBTB5 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             1             184
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZBTB5 MUTATED        0      0      1      1      0      1      0
  ZBTB5 WILD-TYPE     72    109     89     43     49     45     68
D357V8, multiclass
        clus
vv       ZBTB5 MUTATED ZBTB5 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             0             109
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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
  ZBTB5 MUTATED        0      3      0
  ZBTB5 WILD-TYPE    175    208     90
D357V9, multiclass
        clus
vv       ZBTB5 MUTATED ZBTB5 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             3             208
  CLUS_3             0              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
  ZBTB5 MUTATED        0      3      0      0
  ZBTB5 WILD-TYPE     70    183    131     89
D357V10, multiclass
        clus
vv       ZBTB5 MUTATED ZBTB5 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             3             183
  CLUS_3             0             131
  CLUS_4             0              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZBTB5 MUTATED        0      2      0
  ZBTB5 WILD-TYPE    141    180     89
D357V11, multiclass
[1] "Remove cluster labels:" "ZBTB5 MUTATED"         
clus
  ZBTB5 MUTATED ZBTB5 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5930      TCGA-50-5931 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5932      TCGA-50-5933      TCGA-50-5935      TCGA-50-5936 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5946      TCGA-50-6590      TCGA-50-6591      TCGA-50-6592 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6594      TCGA-50-6595      TCGA-50-6597 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-50-8457      TCGA-50-8459 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-8460      TCGA-53-7624      TCGA-53-7626      TCGA-53-7813 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7726      TCGA-55-7727      TCGA-55-7728 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7816      TCGA-55-7903      TCGA-55-7907 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7910      TCGA-55-7911      TCGA-55-7913      TCGA-55-7914 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7994      TCGA-55-8087      TCGA-55-8089      TCGA-55-8090 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8091      TCGA-55-8092      TCGA-55-8094      TCGA-55-8096 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8203      TCGA-55-8204      TCGA-55-8205      TCGA-55-8206 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8208      TCGA-55-8299      TCGA-55-8301      TCGA-55-8302 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8505      TCGA-55-8506      TCGA-55-8507      TCGA-55-8508 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8510      TCGA-55-8511      TCGA-55-8512      TCGA-55-8513 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8514      TCGA-55-8614      TCGA-55-8615      TCGA-55-8616 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8619      TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-A492      TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395      TCGA-62-8397 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-8398      TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-A472      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-5775      TCGA-64-5778      TCGA-64-5779      TCGA-64-5781 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-5815      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7765      TCGA-69-7973      TCGA-69-7974 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-7978      TCGA-69-7979      TCGA-69-7980      TCGA-69-8253 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-8254      TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-71-8520      TCGA-73-4658      TCGA-73-4676      TCGA-73-7498 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-5125      TCGA-75-5126 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-5146      TCGA-75-5147      TCGA-75-6203      TCGA-75-6205 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6206      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7025      TCGA-75-7027      TCGA-75-7030 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-7031      TCGA-78-7143      TCGA-78-7145      TCGA-78-7146 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7154      TCGA-78-7156      TCGA-78-7159 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZBTB5 MUTATED        1      1      0
  ZBTB5 WILD-TYPE     93    232     85
D357V12, multiclass
[1] "Remove cluster labels:" "ZBTB5 MUTATED"         
clus
  ZBTB5 MUTATED ZBTB5 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5930      TCGA-50-5931 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5932      TCGA-50-5933      TCGA-50-5935      TCGA-50-5936 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-5946      TCGA-50-6590      TCGA-50-6591      TCGA-50-6592 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6594      TCGA-50-6595      TCGA-50-6597 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-50-8457      TCGA-50-8459 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-50-8460      TCGA-53-7624      TCGA-53-7626      TCGA-53-7813 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7726      TCGA-55-7727      TCGA-55-7728 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7816      TCGA-55-7903      TCGA-55-7907 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7910      TCGA-55-7911      TCGA-55-7913      TCGA-55-7914 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-7994      TCGA-55-8087      TCGA-55-8089      TCGA-55-8090 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8091      TCGA-55-8092      TCGA-55-8094      TCGA-55-8096 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8203      TCGA-55-8204      TCGA-55-8205      TCGA-55-8206 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8208      TCGA-55-8299      TCGA-55-8301      TCGA-55-8302 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8505      TCGA-55-8506      TCGA-55-8507      TCGA-55-8508 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8510      TCGA-55-8511      TCGA-55-8512      TCGA-55-8513 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8514      TCGA-55-8614      TCGA-55-8615      TCGA-55-8616 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-8619      TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-A492      TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395      TCGA-62-8397 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-8398      TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-62-A472      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-5775      TCGA-64-5778      TCGA-64-5779      TCGA-64-5781 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-64-5815      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7765      TCGA-69-7973      TCGA-69-7974 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-7978      TCGA-69-7979      TCGA-69-7980      TCGA-69-8253 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-69-8254      TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-71-8520      TCGA-73-4658      TCGA-73-4676      TCGA-73-7498 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-5125      TCGA-75-5126 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-5146      TCGA-75-5147      TCGA-75-6203      TCGA-75-6205 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6206      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7025      TCGA-75-7027      TCGA-75-7030 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-75-7031      TCGA-78-7143      TCGA-78-7145      TCGA-78-7146 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7154      TCGA-78-7156      TCGA-78-7159 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"ZBTB5 WILD-TYPE" "ZBTB5 WILD-TYPE" 

Clustering(358) Variable = FANCM MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FANCM MUTATED        0      1      0      1
  FANCM WILD-TYPE      5      6      5      2
D358V1, multiclass
[1] "Remove cluster labels:" "FANCM MUTATED"         
clus
  FANCM MUTATED FANCM WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FANCM MUTATED        0      1      1
  FANCM WILD-TYPE      7      8      3
D358V2, multiclass
[1] "Remove cluster labels:" "FANCM MUTATED"         
clus
  FANCM MUTATED FANCM WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" "FANCM WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"FANCM WILD-TYPE" "FANCM WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FANCM MUTATED        5      9      8      9
  FANCM WILD-TYPE     60    201     64    122
D358V3, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             5              60
  CLUS_2             9             201
  CLUS_3             8              64
  CLUS_4             9             122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FANCM MUTATED        6     13     10
  FANCM WILD-TYPE    125    125    151
D358V4, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             6             125
  CLUS_2            13             125
  CLUS_3            10             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FANCM MUTATED        1      4      4
  FANCM WILD-TYPE     41     67     59
D358V5, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             1              41
  CLUS_2             4              67
  CLUS_3             4              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 CLUS_4 CLUS_5
  FANCM MUTATED        0      1      5      2      1
  FANCM WILD-TYPE     39     31     38     28     31
D358V6, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             0              39
  CLUS_2             1              31
  CLUS_3             5              38
  CLUS_4             2              28
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FANCM MUTATED        4     16     11
  FANCM WILD-TYPE    146    169    132
D358V7, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             4             146
  CLUS_2            16             169
  CLUS_3            11             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FANCM MUTATED        1      7      9      3      3      5      3
  FANCM WILD-TYPE     71    102     81     41     46     41     65
D358V8, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             1              71
  CLUS_2             7             102
  CLUS_3             9              81
  CLUS_4             3              41
  CLUS_5             3              46
  CLUS_6             5              41
  CLUS_7             3              65
[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
  FANCM MUTATED        7     17      7
  FANCM WILD-TYPE    168    194     83
D358V9, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             7             168
  CLUS_2            17             194
  CLUS_3             7              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
  FANCM MUTATED        3     10      7     11
  FANCM WILD-TYPE     67    176    124     78
D358V10, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             3              67
  CLUS_2            10             176
  CLUS_3             7             124
  CLUS_4            11              78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FANCM MUTATED        9     11      8
  FANCM WILD-TYPE    132    171     81
D358V11, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             9             132
  CLUS_2            11             171
  CLUS_3             8              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
  FANCM MUTATED        3     21      4
  FANCM WILD-TYPE     91    212     81
D358V12, multiclass
        clus
vv       FANCM MUTATED FANCM WILD-TYPE
  CLUS_1             3              91
  CLUS_2            21             212
  CLUS_3             4              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"

Clustering(359) Variable = MYOF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYOF MUTATED        0      0      0      0
  MYOF WILD-TYPE      5      7      5      3
D359V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYOF MUTATED        0      0      0
  MYOF WILD-TYPE      7      9      4
D359V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYOF MUTATED        7      4      3      3
  MYOF WILD-TYPE     58    206     69    128
D359V3, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            7             58
  CLUS_2            4            206
  CLUS_3            3             69
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYOF MUTATED        3      6      7
  MYOF WILD-TYPE    128    132    154
D359V4, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            3            128
  CLUS_2            6            132
  CLUS_3            7            154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYOF MUTATED        1      1      4
  MYOF WILD-TYPE     41     70     59
D359V5, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             70
  CLUS_3            4             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 CLUS_4 CLUS_5
  MYOF MUTATED        0      1      0      3      2
  MYOF WILD-TYPE     39     31     43     27     30
D359V6, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            0             39
  CLUS_2            1             31
  CLUS_3            0             43
  CLUS_4            3             27
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYOF MUTATED        1      5     11
  MYOF WILD-TYPE    149    180    132
D359V7, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            1            149
  CLUS_2            5            180
  CLUS_3           11            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MYOF MUTATED        2      2      2      2      7      1      1
  MYOF WILD-TYPE     70    107     88     42     42     45     67
D359V8, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            2             70
  CLUS_2            2            107
  CLUS_3            2             88
  CLUS_4            2             42
  CLUS_5            7             42
  CLUS_6            1             45
  CLUS_7            1             67
[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
  MYOF MUTATED        1     10      6
  MYOF WILD-TYPE    174    201     84
D359V9, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            1            174
  CLUS_2           10            201
  CLUS_3            6             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
  MYOF MUTATED        0     10      3      4
  MYOF WILD-TYPE     70    176    128     85
D359V10, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            0             70
  CLUS_2           10            176
  CLUS_3            3            128
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYOF MUTATED        3      7      6
  MYOF WILD-TYPE    138    175     83
D359V11, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            3            138
  CLUS_2            7            175
  CLUS_3            6             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
  MYOF MUTATED        2     10      4
  MYOF WILD-TYPE     92    223     81
D359V12, multiclass
        clus
vv       MYOF MUTATED MYOF WILD-TYPE
  CLUS_1            2             92
  CLUS_2           10            223
  CLUS_3            4             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"

Clustering(360) Variable = HNRNPA3 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPA3 MUTATED        0      0      0      0
  HNRNPA3 WILD-TYPE      5      7      5      3
D360V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPA3 MUTATED        0      0      0
  HNRNPA3 WILD-TYPE      7      9      4
D360V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPA3 MUTATED        1      2      1      3
  HNRNPA3 WILD-TYPE     64    208     71    128
D360V3, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               2               208
  CLUS_3               1                71
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPA3 MUTATED        3      2      2
  HNRNPA3 WILD-TYPE    128    136    159
D360V4, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               3               128
  CLUS_2               2               136
  CLUS_3               2               159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPA3 MUTATED        0      2      0
  HNRNPA3 WILD-TYPE     42     69     63
D360V5, multiclass
[1] "Remove cluster labels:" "HNRNPA3 MUTATED"       
clus
  HNRNPA3 MUTATED HNRNPA3 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-64-1676        TCGA-64-1677 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7043        TCGA-95-7567 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HNRNPA3 MUTATED        1      0      1      0      0
  HNRNPA3 WILD-TYPE     38     32     42     30     32
D360V6, multiclass
[1] "Remove cluster labels:" "HNRNPA3 MUTATED"       
clus
  HNRNPA3 MUTATED HNRNPA3 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-55-6970        TCGA-55-6971        TCGA-55-6978        TCGA-55-6979 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-55-6981        TCGA-55-6982        TCGA-55-7573        TCGA-55-7574 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-55-7728        TCGA-55-7815        TCGA-64-1676        TCGA-64-1677 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7155        TCGA-78-7156        TCGA-78-7158        TCGA-78-7159 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7160        TCGA-78-7161        TCGA-78-7162        TCGA-78-7163 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7166        TCGA-78-7167        TCGA-78-7535        TCGA-78-7536 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7537        TCGA-78-7539        TCGA-78-7540        TCGA-78-7542 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-78-7633        TCGA-80-5607        TCGA-80-5608        TCGA-86-6562 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-86-6851        TCGA-86-7713        TCGA-91-6828        TCGA-91-6829 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-91-6835        TCGA-91-6840        TCGA-91-6847        TCGA-91-6849 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-91-7771        TCGA-93-7348        TCGA-95-7043        TCGA-95-7567 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"HNRNPA3 WILD-TYPE" "HNRNPA3 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPA3 MUTATED        0      6      1
  HNRNPA3 WILD-TYPE    150    179    142
D360V7, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               0               150
  CLUS_2               6               179
  CLUS_3               1               142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HNRNPA3 MUTATED        0      2      4      0      0      1      0
  HNRNPA3 WILD-TYPE     72    107     86     44     49     45     68
D360V8, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               2               107
  CLUS_3               4                86
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               1                45
  CLUS_7               0                68
[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
  HNRNPA3 MUTATED        1      6      0
  HNRNPA3 WILD-TYPE    174    205     90
D360V9, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               6               205
  CLUS_3               0                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
  HNRNPA3 MUTATED        1      3      0      3
  HNRNPA3 WILD-TYPE     69    183    131     86
D360V10, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               3               183
  CLUS_3               0               131
  CLUS_4               3                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  HNRNPA3 MUTATED        2      3      2
  HNRNPA3 WILD-TYPE    139    179     87
D360V11, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               2               139
  CLUS_2               3               179
  CLUS_3               2                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
  HNRNPA3 MUTATED        1      6      0
  HNRNPA3 WILD-TYPE     93    227     85
D360V12, multiclass
        clus
vv       HNRNPA3 MUTATED HNRNPA3 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               6               227
  CLUS_3               0                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"

Clustering(361) Variable = LRRFIP2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRFIP2 MUTATED        0      0      0      0
  LRRFIP2 WILD-TYPE      5      7      5      3
D361V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP2 MUTATED        0      0      0
  LRRFIP2 WILD-TYPE      7      9      4
D361V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LRRFIP2 MUTATED        1      3      1      2
  LRRFIP2 WILD-TYPE     64    207     71    129
D361V3, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               3               207
  CLUS_3               1                71
  CLUS_4               2               129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP2 MUTATED        1      4      1
  LRRFIP2 WILD-TYPE    130    134    160
D361V4, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               4               134
  CLUS_3               1               160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP2 MUTATED        1      0      1
  LRRFIP2 WILD-TYPE     41     71     62
D361V5, multiclass
[1] "Remove cluster labels:" "LRRFIP2 MUTATED"       
clus
  LRRFIP2 MUTATED LRRFIP2 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7156        TCGA-78-7158        TCGA-78-7159        TCGA-78-7160 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7161        TCGA-78-7162        TCGA-78-7163        TCGA-78-7166 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7167        TCGA-78-7535        TCGA-78-7536        TCGA-78-7537 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7539        TCGA-78-7540        TCGA-78-7542        TCGA-78-7633 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-80-5607        TCGA-80-5608        TCGA-86-6562        TCGA-86-6851 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-86-7713        TCGA-91-6828        TCGA-91-6829        TCGA-91-6835 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-91-6840        TCGA-91-6847        TCGA-91-6849        TCGA-91-7771 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-93-7348        TCGA-95-7039        TCGA-95-7043        TCGA-95-7567 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LRRFIP2 MUTATED        0      0      1      0      1
  LRRFIP2 WILD-TYPE     39     32     42     30     31
D361V6, multiclass
[1] "Remove cluster labels:" "LRRFIP2 MUTATED"       
clus
  LRRFIP2 MUTATED LRRFIP2 WILD-TYPE 
                2               174 
       TCGA-05-4249        TCGA-05-4384        TCGA-05-4396        TCGA-05-4398 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-4402        TCGA-05-4405        TCGA-05-4410        TCGA-05-4417 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-4418        TCGA-05-4420        TCGA-05-4422        TCGA-05-4426 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-4430        TCGA-05-5420        TCGA-05-5423        TCGA-05-5429 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-05-5715        TCGA-38-4626        TCGA-38-4627        TCGA-38-6178 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-2656        TCGA-44-2657        TCGA-44-2661        TCGA-44-2665 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-3396        TCGA-44-3919        TCGA-44-4112        TCGA-44-5645 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-6145        TCGA-44-6146        TCGA-44-6147        TCGA-44-6774 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-6775        TCGA-44-6776        TCGA-44-6777        TCGA-44-6779 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-7659        TCGA-44-7662        TCGA-44-7670        TCGA-44-7671 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-44-7672        TCGA-49-4486        TCGA-49-4487        TCGA-49-4488 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-4494        TCGA-49-4501        TCGA-49-4505        TCGA-49-4506 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-4507        TCGA-49-4510        TCGA-49-4512        TCGA-49-4514 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-6742        TCGA-49-6744        TCGA-49-6745        TCGA-49-6761 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-49-6767        TCGA-50-5044        TCGA-50-5049        TCGA-50-5051 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-5068        TCGA-50-5072        TCGA-50-5931        TCGA-50-5932 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-5933        TCGA-50-5936        TCGA-50-5939        TCGA-50-5941 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-5942        TCGA-50-5944        TCGA-50-6593        TCGA-50-6595 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-50-6597        TCGA-50-6673        TCGA-50-7109        TCGA-53-7626 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-53-7813        TCGA-55-1592        TCGA-55-6543        TCGA-55-6712 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-55-6971        TCGA-55-6978        TCGA-55-6979        TCGA-55-6981 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-55-6982        TCGA-55-7573        TCGA-55-7574        TCGA-55-7728 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-55-7815        TCGA-55-7911        TCGA-64-1676        TCGA-64-1677 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-64-1679        TCGA-64-1681        TCGA-64-5774        TCGA-64-5778 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-64-5781        TCGA-67-3771        TCGA-67-6215        TCGA-67-6216 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-67-6217        TCGA-69-7760        TCGA-69-7761        TCGA-69-7763 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-69-7764        TCGA-69-7765        TCGA-71-6725        TCGA-73-4658 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-73-4659        TCGA-73-4675        TCGA-73-4676        TCGA-73-7498 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-73-7499        TCGA-75-5122        TCGA-75-6203        TCGA-75-6205 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-75-6207        TCGA-75-6211        TCGA-75-6212        TCGA-75-6214 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-75-7027        TCGA-75-7030        TCGA-75-7031        TCGA-78-7143 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7145        TCGA-78-7147        TCGA-78-7148        TCGA-78-7149 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7150        TCGA-78-7152        TCGA-78-7153        TCGA-78-7154 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7156        TCGA-78-7158        TCGA-78-7159        TCGA-78-7160 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7161        TCGA-78-7162        TCGA-78-7163        TCGA-78-7166 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7167        TCGA-78-7535        TCGA-78-7536        TCGA-78-7537 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-78-7539        TCGA-78-7540        TCGA-78-7542        TCGA-78-7633 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-80-5607        TCGA-80-5608        TCGA-86-6562        TCGA-86-6851 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-86-7713        TCGA-91-6828        TCGA-91-6829        TCGA-91-6835 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-91-6840        TCGA-91-6847        TCGA-91-6849        TCGA-91-7771 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-93-7348        TCGA-95-7039        TCGA-95-7043        TCGA-95-7567 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-95-7947        TCGA-95-7948        TCGA-97-7546        TCGA-97-7552 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-97-7553        TCGA-97-7554        TCGA-97-7937        TCGA-97-7938 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
       TCGA-97-7941        TCGA-99-7458 
"LRRFIP2 WILD-TYPE" "LRRFIP2 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP2 MUTATED        0      5      2
  LRRFIP2 WILD-TYPE    150    180    141
D361V7, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               0               150
  CLUS_2               5               180
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LRRFIP2 MUTATED        0      1      3      0      0      2      1
  LRRFIP2 WILD-TYPE     72    108     87     44     49     44     67
D361V8, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               1               108
  CLUS_3               3                87
  CLUS_4               0                44
  CLUS_5               0                49
  CLUS_6               2                44
  CLUS_7               1                67
[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
  LRRFIP2 MUTATED        1      4      2
  LRRFIP2 WILD-TYPE    174    207     88
D361V9, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               1               174
  CLUS_2               4               207
  CLUS_3               2                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
  LRRFIP2 MUTATED        1      4      0      2
  LRRFIP2 WILD-TYPE     69    182    131     87
D361V10, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               4               182
  CLUS_3               0               131
  CLUS_4               2                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  LRRFIP2 MUTATED        1      4      1
  LRRFIP2 WILD-TYPE    140    178     88
D361V11, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               4               178
  CLUS_3               1                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
  LRRFIP2 MUTATED        0      6      0
  LRRFIP2 WILD-TYPE     94    227     85
D361V12, multiclass
        clus
vv       LRRFIP2 MUTATED LRRFIP2 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               6               227
  CLUS_3               0                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"

Clustering(362) Variable = MYLK MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYLK MUTATED        0      0      1      0
  MYLK WILD-TYPE      5      7      4      3
D362V1, multiclass
[1] "Remove cluster labels:" "MYLK MUTATED"          
clus
  MYLK MUTATED MYLK WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYLK MUTATED        1      0      0
  MYLK WILD-TYPE      6      9      4
D362V2, multiclass
[1] "Remove cluster labels:" "MYLK MUTATED"          
clus
  MYLK MUTATED MYLK WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"MYLK WILD-TYPE" "MYLK WILD-TYPE" "MYLK WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYLK MUTATED        5      7      4      5
  MYLK WILD-TYPE     60    203     68    126
D362V3, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            5             60
  CLUS_2            7            203
  CLUS_3            4             68
  CLUS_4            5            126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYLK MUTATED        2      6      8
  MYLK WILD-TYPE    129    132    153
D362V4, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            2            129
  CLUS_2            6            132
  CLUS_3            8            153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYLK MUTATED        1      3      3
  MYLK WILD-TYPE     41     68     60
D362V5, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            1             41
  CLUS_2            3             68
  CLUS_3            3             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
  MYLK MUTATED        1      1      1      1      3
  MYLK WILD-TYPE     38     31     42     29     29
D362V6, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            1             38
  CLUS_2            1             31
  CLUS_3            1             42
  CLUS_4            1             29
  CLUS_5            3             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYLK MUTATED        4     10      7
  MYLK WILD-TYPE    146    175    136
D362V7, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            4            146
  CLUS_2           10            175
  CLUS_3            7            136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MYLK MUTATED        2      5      5      2      3      2      2
  MYLK WILD-TYPE     70    104     85     42     46     44     66
D362V8, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            2             70
  CLUS_2            5            104
  CLUS_3            5             85
  CLUS_4            2             42
  CLUS_5            3             46
  CLUS_6            2             44
  CLUS_7            2             66
[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
  MYLK MUTATED        3     12      5
  MYLK WILD-TYPE    172    199     85
D362V9, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            3            172
  CLUS_2           12            199
  CLUS_3            5             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
  MYLK MUTATED        1     11      1      7
  MYLK WILD-TYPE     69    175    130     82
D362V10, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            1             69
  CLUS_2           11            175
  CLUS_3            1            130
  CLUS_4            7             82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MYLK MUTATED        3      7      5
  MYLK WILD-TYPE    138    175     84
D362V11, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            3            138
  CLUS_2            7            175
  CLUS_3            5             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
  MYLK MUTATED        2     11      2
  MYLK WILD-TYPE     92    222     83
D362V12, multiclass
        clus
vv       MYLK MUTATED MYLK WILD-TYPE
  CLUS_1            2             92
  CLUS_2           11            222
  CLUS_3            2             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"

Clustering(363) Variable = AMELX MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMELX MUTATED        0      0      0      0
  AMELX WILD-TYPE      5      7      5      3
D363V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AMELX MUTATED        0      0      0
  AMELX WILD-TYPE      7      9      4
D363V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AMELX MUTATED        1      5      0      4
  AMELX WILD-TYPE     64    205     72    127
D363V3, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             1              64
  CLUS_2             5             205
  CLUS_3             0              72
  CLUS_4             4             127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AMELX MUTATED        3      1      6
  AMELX WILD-TYPE    128    137    155
D363V4, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             3             128
  CLUS_2             1             137
  CLUS_3             6             155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AMELX MUTATED        1      5      0
  AMELX WILD-TYPE     41     66     63
D363V5, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             1              41
  CLUS_2             5              66
  CLUS_3             0              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 CLUS_4 CLUS_5
  AMELX MUTATED        2      0      2      1      1
  AMELX WILD-TYPE     37     32     41     29     31
D363V6, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             2              37
  CLUS_2             0              32
  CLUS_3             2              41
  CLUS_4             1              29
  CLUS_5             1              31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AMELX MUTATED        4      3      3
  AMELX WILD-TYPE    146    182    140
D363V7, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             4             146
  CLUS_2             3             182
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AMELX MUTATED        1      2      1      0      3      1      2
  AMELX WILD-TYPE     71    107     89     44     46     45     66
D363V8, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             1              71
  CLUS_2             2             107
  CLUS_3             1              89
  CLUS_4             0              44
  CLUS_5             3              46
  CLUS_6             1              45
  CLUS_7             2              66
[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
  AMELX MUTATED        1      6      3
  AMELX WILD-TYPE    174    205     87
D363V9, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             1             174
  CLUS_2             6             205
  CLUS_3             3              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
  AMELX MUTATED        0      4      3      3
  AMELX WILD-TYPE     70    182    128     86
D363V10, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             3             128
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AMELX MUTATED        3      3      3
  AMELX WILD-TYPE    138    179     86
D363V11, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             3             138
  CLUS_2             3             179
  CLUS_3             3              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
  AMELX MUTATED        0      7      2
  AMELX WILD-TYPE     94    226     83
D363V12, multiclass
        clus
vv       AMELX MUTATED AMELX WILD-TYPE
  CLUS_1             0              94
  CLUS_2             7             226
  CLUS_3             2              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"

Clustering(364) Variable = TMEM145 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM145 MUTATED        0      0      0      0
  TMEM145 WILD-TYPE      5      7      5      3
D364V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM145 MUTATED        0      0      0
  TMEM145 WILD-TYPE      7      9      4
D364V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM145 MUTATED        0      4      2      5
  TMEM145 WILD-TYPE     65    206     70    126
D364V3, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               0                65
  CLUS_2               4               206
  CLUS_3               2                70
  CLUS_4               5               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM145 MUTATED        4      2      5
  TMEM145 WILD-TYPE    127    136    156
D364V4, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               4               127
  CLUS_2               2               136
  CLUS_3               5               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM145 MUTATED        3      4      0
  TMEM145 WILD-TYPE     39     67     63
D364V5, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               4                67
  CLUS_3               0                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 CLUS_4 CLUS_5
  TMEM145 MUTATED        1      0      3      1      2
  TMEM145 WILD-TYPE     38     32     40     29     30
D364V6, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               1                38
  CLUS_2               0                32
  CLUS_3               3                40
  CLUS_4               1                29
  CLUS_5               2                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM145 MUTATED        3      6      2
  TMEM145 WILD-TYPE    147    179    141
D364V7, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               3               147
  CLUS_2               6               179
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TMEM145 MUTATED        2      5      2      0      1      0      1
  TMEM145 WILD-TYPE     70    104     88     44     48     46     67
D364V8, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               2                70
  CLUS_2               5               104
  CLUS_3               2                88
  CLUS_4               0                44
  CLUS_5               1                48
  CLUS_6               0                46
  CLUS_7               1                67
[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
  TMEM145 MUTATED        5      6      0
  TMEM145 WILD-TYPE    170    205     90
D364V9, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               5               170
  CLUS_2               6               205
  CLUS_3               0                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
  TMEM145 MUTATED        3      2      2      4
  TMEM145 WILD-TYPE     67    184    129     85
D364V10, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               3                67
  CLUS_2               2               184
  CLUS_3               2               129
  CLUS_4               4                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TMEM145 MUTATED        4      4      3
  TMEM145 WILD-TYPE    137    178     86
D364V11, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               4               137
  CLUS_2               4               178
  CLUS_3               3                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
  TMEM145 MUTATED        0      7      4
  TMEM145 WILD-TYPE     94    226     81
D364V12, multiclass
        clus
vv       TMEM145 MUTATED TMEM145 WILD-TYPE
  CLUS_1               0                94
  CLUS_2               7               226
  CLUS_3               4                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"

Clustering(365) Variable = GCDH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GCDH MUTATED        0      0      0      0
  GCDH WILD-TYPE      5      7      5      3
D365V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCDH MUTATED        0      0      0
  GCDH WILD-TYPE      7      9      4
D365V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GCDH MUTATED        0      2      0      2
  GCDH WILD-TYPE     65    208     72    129
D365V3, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            0             65
  CLUS_2            2            208
  CLUS_3            0             72
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCDH MUTATED        0      3      1
  GCDH WILD-TYPE    131    135    160
D365V4, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            0            131
  CLUS_2            3            135
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCDH MUTATED        0      1      0
  GCDH WILD-TYPE     42     70     63
D365V5, multiclass
[1] "Remove cluster labels:" "GCDH MUTATED"          
clus
  GCDH MUTATED GCDH WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4417     TCGA-05-4418 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GCDH MUTATED        1      0      0      0      0
  GCDH WILD-TYPE     38     32     43     30     32
D365V6, multiclass
[1] "Remove cluster labels:" "GCDH MUTATED"          
clus
  GCDH MUTATED GCDH WILD-TYPE 
             1            175 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4417     TCGA-05-4418 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-3919     TCGA-44-4112     TCGA-44-5645     TCGA-44-6145 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6774     TCGA-44-6775 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-6776     TCGA-44-6777     TCGA-44-6779     TCGA-44-7659 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7670     TCGA-44-7671     TCGA-44-7672 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-4486     TCGA-49-4487     TCGA-49-4488     TCGA-49-4494 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-4501     TCGA-49-4505     TCGA-49-4506     TCGA-49-4507 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-4510     TCGA-49-4512     TCGA-49-4514     TCGA-49-6742 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5049     TCGA-50-5051     TCGA-50-5068 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5072     TCGA-50-5931     TCGA-50-5932     TCGA-50-5933 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-5944     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7145     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7153     TCGA-78-7154 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7155     TCGA-78-7156     TCGA-78-7158     TCGA-78-7159 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7160     TCGA-78-7161     TCGA-78-7162     TCGA-78-7163 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7535     TCGA-78-7536 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7537     TCGA-78-7539     TCGA-78-7540     TCGA-78-7542 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-78-7633     TCGA-80-5607     TCGA-80-5608     TCGA-86-6562 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-86-6851     TCGA-86-7713     TCGA-91-6828     TCGA-91-6829 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-91-6835     TCGA-91-6840     TCGA-91-6847     TCGA-91-6849 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-91-7771     TCGA-93-7348     TCGA-95-7039     TCGA-95-7043 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7947     TCGA-95-7948     TCGA-97-7546 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-99-7458 
"GCDH WILD-TYPE" "GCDH WILD-TYPE" "GCDH WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCDH MUTATED        1      2      1
  GCDH WILD-TYPE    149    183    142
D365V7, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            1            149
  CLUS_2            2            183
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GCDH MUTATED        0      0      2      0      1      0      1
  GCDH WILD-TYPE     72    109     88     44     48     46     67
D365V8, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            0             72
  CLUS_2            0            109
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            0             46
  CLUS_7            1             67
[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
  GCDH MUTATED        1      2      1
  GCDH WILD-TYPE    174    209     89
D365V9, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            1            174
  CLUS_2            2            209
  CLUS_3            1             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
  GCDH MUTATED        0      1      1      2
  GCDH WILD-TYPE     70    185    130     87
D365V10, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            185
  CLUS_3            1            130
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GCDH MUTATED        1      2      1
  GCDH WILD-TYPE    140    180     88
D365V11, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            1            140
  CLUS_2            2            180
  CLUS_3            1             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
  GCDH MUTATED        0      3      1
  GCDH WILD-TYPE     94    230     84
D365V12, multiclass
        clus
vv       GCDH MUTATED GCDH WILD-TYPE
  CLUS_1            0             94
  CLUS_2            3            230
  CLUS_3            1             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"

Clustering(366) Variable = CACNA2D1 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA2D1 MUTATED        0      3      1      1
  CACNA2D1 WILD-TYPE      5      4      4      2
D366V1, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                0                  5
  CLUS_2                3                  4
  CLUS_3                1                  4
  CLUS_4                1                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D1 MUTATED        1      3      1
  CACNA2D1 WILD-TYPE      6      6      3
D366V2, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                3                  6
  CLUS_3                1                  3
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA2D1 MUTATED        5     14      2     19
  CACNA2D1 WILD-TYPE     60    196     70    112
D366V3, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                5                 60
  CLUS_2               14                196
  CLUS_3                2                 70
  CLUS_4               19                112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D1 MUTATED        5     11     20
  CACNA2D1 WILD-TYPE    126    127    141
D366V4, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                5                126
  CLUS_2               11                127
  CLUS_3               20                141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D1 MUTATED        2      9      4
  CACNA2D1 WILD-TYPE     40     62     59
D366V5, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                9                 62
  CLUS_3                4                 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 CLUS_4 CLUS_5
  CACNA2D1 MUTATED        3      1      8      3      0
  CACNA2D1 WILD-TYPE     36     31     35     27     32
D366V6, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                3                 36
  CLUS_2                1                 31
  CLUS_3                8                 35
  CLUS_4                3                 27
  CLUS_5                0                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D1 MUTATED        8     24      8
  CACNA2D1 WILD-TYPE    142    161    135
D366V7, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                8                142
  CLUS_2               24                161
  CLUS_3                8                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CACNA2D1 MUTATED        4     18      9      1      3      2      3
  CACNA2D1 WILD-TYPE     68     91     81     43     46     44     65
D366V8, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                4                 68
  CLUS_2               18                 91
  CLUS_3                9                 81
  CLUS_4                1                 43
  CLUS_5                3                 46
  CLUS_6                2                 44
  CLUS_7                3                 65
[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
  CACNA2D1 MUTATED       12     20      8
  CACNA2D1 WILD-TYPE    163    191     82
D366V9, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1               12                163
  CLUS_2               20                191
  CLUS_3                8                 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
  CACNA2D1 MUTATED        6     19      6      9
  CACNA2D1 WILD-TYPE     64    167    125     80
D366V10, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                6                 64
  CLUS_2               19                167
  CLUS_3                6                125
  CLUS_4                9                 80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  CACNA2D1 MUTATED        9     14     10
  CACNA2D1 WILD-TYPE    132    168     79
D366V11, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                9                132
  CLUS_2               14                168
  CLUS_3               10                 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
  CACNA2D1 MUTATED        5     21      7
  CACNA2D1 WILD-TYPE     89    212     78
D366V12, multiclass
        clus
vv       CACNA2D1 MUTATED CACNA2D1 WILD-TYPE
  CLUS_1                5                 89
  CLUS_2               21                212
  CLUS_3                7                 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"

Clustering(367) Variable = OR52E8 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR52E8 MUTATED        0      0      0      0
  OR52E8 WILD-TYPE      5      7      5      3
D367V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52E8 MUTATED        0      0      0
  OR52E8 WILD-TYPE      7      9      4
D367V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR52E8 MUTATED        1      8      3      3
  OR52E8 WILD-TYPE     64    202     69    128
D367V3, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              8              202
  CLUS_3              3               69
  CLUS_4              3              128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52E8 MUTATED        3      6      6
  OR52E8 WILD-TYPE    128    132    155
D367V4, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              3              128
  CLUS_2              6              132
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52E8 MUTATED        2      0      1
  OR52E8 WILD-TYPE     40     71     62
D367V5, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              2               40
  CLUS_2              0               71
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OR52E8 MUTATED        0      1      0      0      2
  OR52E8 WILD-TYPE     39     31     43     30     30
D367V6, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              1               31
  CLUS_3              0               43
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52E8 MUTATED        6      6      3
  OR52E8 WILD-TYPE    144    179    140
D367V7, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              6              144
  CLUS_2              6              179
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OR52E8 MUTATED        2      5      1      0      2      2      3
  OR52E8 WILD-TYPE     70    104     89     44     47     44     65
D367V8, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              2               70
  CLUS_2              5              104
  CLUS_3              1               89
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              3               65
[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
  OR52E8 MUTATED        3      9      2
  OR52E8 WILD-TYPE    172    202     88
D367V9, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              3              172
  CLUS_2              9              202
  CLUS_3              2               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
  OR52E8 MUTATED        0      7      4      3
  OR52E8 WILD-TYPE     70    179    127     86
D367V10, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              7              179
  CLUS_3              4              127
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  OR52E8 MUTATED        2      9      3
  OR52E8 WILD-TYPE    139    173     86
D367V11, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              2              139
  CLUS_2              9              173
  CLUS_3              3               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
  OR52E8 MUTATED        2     10      2
  OR52E8 WILD-TYPE     92    223     83
D367V12, multiclass
        clus
vv       OR52E8 MUTATED OR52E8 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             10              223
  CLUS_3              2               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"

Clustering(368) Variable = ITGA2B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGA2B MUTATED        1      0      0      0
  ITGA2B WILD-TYPE      4      7      5      3
D368V1, multiclass
[1] "Remove cluster labels:" "ITGA2B MUTATED"        
clus
  ITGA2B MUTATED ITGA2B WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-4112 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGA2B MUTATED        0      1      0
  ITGA2B WILD-TYPE      7      8      4
D368V2, multiclass
[1] "Remove cluster labels:" "ITGA2B MUTATED"        
clus
  ITGA2B MUTATED ITGA2B WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-4112 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" "ITGA2B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGA2B MUTATED        1      3      2      6
  ITGA2B WILD-TYPE     64    207     70    125
D368V3, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              1               64
  CLUS_2              3              207
  CLUS_3              2               70
  CLUS_4              6              125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGA2B MUTATED        2      4      4
  ITGA2B WILD-TYPE    129    134    157
D368V4, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              2              129
  CLUS_2              4              134
  CLUS_3              4              157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGA2B MUTATED        0      4      0
  ITGA2B WILD-TYPE     42     67     63
D368V5, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              0               42
  CLUS_2              4               67
  CLUS_3              0               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 CLUS_4 CLUS_5
  ITGA2B MUTATED        1      0      3      0      0
  ITGA2B WILD-TYPE     38     32     40     30     32
D368V6, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              3               40
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGA2B MUTATED        1      8      3
  ITGA2B WILD-TYPE    149    177    140
D368V7, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              1              149
  CLUS_2              8              177
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ITGA2B MUTATED        1      4      2      0      2      2      1
  ITGA2B WILD-TYPE     71    105     88     44     47     44     67
D368V8, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              1               71
  CLUS_2              4              105
  CLUS_3              2               88
  CLUS_4              0               44
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              1               67
[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
  ITGA2B MUTATED        2      8      1
  ITGA2B WILD-TYPE    173    203     89
D368V9, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              2              173
  CLUS_2              8              203
  CLUS_3              1               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
  ITGA2B MUTATED        2      3      0      6
  ITGA2B WILD-TYPE     68    183    131     83
D368V10, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              2               68
  CLUS_2              3              183
  CLUS_3              0              131
  CLUS_4              6               83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ITGA2B MUTATED        2      5      3
  ITGA2B WILD-TYPE    139    177     86
D368V11, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              2              139
  CLUS_2              5              177
  CLUS_3              3               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
  ITGA2B MUTATED        0      9      1
  ITGA2B WILD-TYPE     94    224     84
D368V12, multiclass
        clus
vv       ITGA2B MUTATED ITGA2B WILD-TYPE
  CLUS_1              0               94
  CLUS_2              9              224
  CLUS_3              1               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"

Clustering(369) Variable = GKN1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GKN1 MUTATED        0      0      1      0
  GKN1 WILD-TYPE      5      7      4      3
D369V1, multiclass
[1] "Remove cluster labels:" "GKN1 MUTATED"          
clus
  GKN1 MUTATED GKN1 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GKN1 MUTATED        1      0      0
  GKN1 WILD-TYPE      6      9      4
D369V2, multiclass
[1] "Remove cluster labels:" "GKN1 MUTATED"          
clus
  GKN1 MUTATED GKN1 WILD-TYPE 
             1             19 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2656     TCGA-44-2661     TCGA-44-2665 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-1595     TCGA-64-1676     TCGA-64-1677 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-3772     TCGA-67-3773 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GKN1 MUTATED        1      2      2      0
  GKN1 WILD-TYPE     64    208     70    131
D369V3, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            1             64
  CLUS_2            2            208
  CLUS_3            2             70
  CLUS_4            0            131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GKN1 MUTATED        1      2      0
  GKN1 WILD-TYPE    130    136    161
D369V4, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            1            130
  CLUS_2            2            136
  CLUS_3            0            161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GKN1 MUTATED        1      0      1
  GKN1 WILD-TYPE     41     71     62
D369V5, multiclass
[1] "Remove cluster labels:" "GKN1 MUTATED"          
clus
  GKN1 MUTATED GKN1 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-2661     TCGA-44-2665     TCGA-44-3396     TCGA-44-3919 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-4112     TCGA-44-5645     TCGA-44-6145     TCGA-44-6146 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6774     TCGA-44-6775     TCGA-44-6776 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-6777     TCGA-44-6779     TCGA-44-7659     TCGA-44-7662 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-49-4486 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-4487     TCGA-49-4488     TCGA-49-4494     TCGA-49-4501 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-4505     TCGA-49-4506     TCGA-49-4507     TCGA-49-4510 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-4512     TCGA-49-4514     TCGA-49-6742     TCGA-49-6744 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-6745     TCGA-49-6761     TCGA-49-6767     TCGA-50-5044 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5068     TCGA-50-5072 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     TCGA-50-5936 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-7109     TCGA-53-7626     TCGA-53-7813     TCGA-55-1592 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-6543     TCGA-55-6712     TCGA-55-6970     TCGA-55-6971 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6981     TCGA-55-6982 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7728     TCGA-55-7815 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-7911     TCGA-64-1676     TCGA-64-1677     TCGA-64-1679 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-64-1681     TCGA-64-5774     TCGA-64-5778     TCGA-64-5781 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GKN1 MUTATED        0      0      0      1      1
  GKN1 WILD-TYPE     39     32     43     29     31
D369V6, multiclass
[1] "Remove cluster labels:" "GKN1 MUTATED"          
clus
  GKN1 MUTATED GKN1 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4430 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-05-5420     TCGA-05-5423     TCGA-05-5429     TCGA-05-5715 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-38-4626     TCGA-38-4627     TCGA-38-6178     TCGA-44-2656 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-2661     TCGA-44-2665     TCGA-44-3396     TCGA-44-3919 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-4112     TCGA-44-5645     TCGA-44-6145     TCGA-44-6146 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-6147     TCGA-44-6774     TCGA-44-6775     TCGA-44-6776 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-6777     TCGA-44-6779     TCGA-44-7659     TCGA-44-7662 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-49-4486 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-4487     TCGA-49-4488     TCGA-49-4494     TCGA-49-4501 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-4505     TCGA-49-4506     TCGA-49-4507     TCGA-49-4510 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-4512     TCGA-49-4514     TCGA-49-6742     TCGA-49-6744 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-49-6745     TCGA-49-6761     TCGA-49-6767     TCGA-50-5044 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5068     TCGA-50-5072 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     TCGA-50-5936 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-50-7109     TCGA-53-7626     TCGA-53-7813     TCGA-55-1592 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-6543     TCGA-55-6712     TCGA-55-6970     TCGA-55-6971 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6981     TCGA-55-6982 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7728     TCGA-55-7815 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-55-7911     TCGA-64-1676     TCGA-64-1677     TCGA-64-1679 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-64-1681     TCGA-64-5774     TCGA-64-5778     TCGA-64-5781 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-67-3771     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-69-7765     TCGA-71-6725     TCGA-73-4658     TCGA-73-4659 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-6203     TCGA-75-6205     TCGA-75-6207 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-75-6211     TCGA-75-6212     TCGA-75-6214     TCGA-75-7027 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"GKN1 WILD-TYPE" "GKN1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GKN1 MUTATED        1      3      1
  GKN1 WILD-TYPE    149    182    142
D369V7, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            3            182
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GKN1 MUTATED        0      0      1      0      0      3      1
  GKN1 WILD-TYPE     72    109     89     44     49     43     67
D369V8, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            0            109
  CLUS_3            1             89
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            3             43
  CLUS_7            1             67
[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
  GKN1 MUTATED        1      3      1
  GKN1 WILD-TYPE    174    208     89
D369V9, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            1            174
  CLUS_2            3            208
  CLUS_3            1             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
  GKN1 MUTATED        0      1      1      3
  GKN1 WILD-TYPE     70    185    130     86
D369V10, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1            185
  CLUS_3            1            130
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GKN1 MUTATED        1      2      0
  GKN1 WILD-TYPE    140    180     89
D369V11, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            1            140
  CLUS_2            2            180
  CLUS_3            0             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
  GKN1 MUTATED        0      3      0
  GKN1 WILD-TYPE     94    230     85
D369V12, multiclass
        clus
vv       GKN1 MUTATED GKN1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            3            230
  CLUS_3            0             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"

Clustering(370) Variable = ADAM11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM11 MUTATED        0      0      0      0
  ADAM11 WILD-TYPE      5      7      5      3
D370V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM11 MUTATED        0      0      0
  ADAM11 WILD-TYPE      7      9      4
D370V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM11 MUTATED        2      2      4      4
  ADAM11 WILD-TYPE     63    208     68    127
D370V3, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              2              208
  CLUS_3              4               68
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM11 MUTATED        1      3      7
  ADAM11 WILD-TYPE    130    135    154
D370V4, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              1              130
  CLUS_2              3              135
  CLUS_3              7              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM11 MUTATED        1      2      0
  ADAM11 WILD-TYPE     41     69     63
D370V5, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2               69
  CLUS_3              0               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 CLUS_4 CLUS_5
  ADAM11 MUTATED        1      1      1      0      0
  ADAM11 WILD-TYPE     38     31     42     30     32
D370V6, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              1               31
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM11 MUTATED        3      6      3
  ADAM11 WILD-TYPE    147    179    140
D370V7, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              3              147
  CLUS_2              6              179
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADAM11 MUTATED        0      4      4      1      1      0      2
  ADAM11 WILD-TYPE     72    105     86     43     48     46     66
D370V8, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              4              105
  CLUS_3              4               86
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              2               66
[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
  ADAM11 MUTATED        2      9      1
  ADAM11 WILD-TYPE    173    202     89
D370V9, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              9              202
  CLUS_3              1               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
  ADAM11 MUTATED        1      5      1      5
  ADAM11 WILD-TYPE     69    181    130     84
D370V10, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              181
  CLUS_3              1              130
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM11 MUTATED        6      3      2
  ADAM11 WILD-TYPE    135    179     87
D370V11, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              6              135
  CLUS_2              3              179
  CLUS_3              2               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
  ADAM11 MUTATED        1      9      1
  ADAM11 WILD-TYPE     93    224     84
D370V12, multiclass
        clus
vv       ADAM11 MUTATED ADAM11 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              9              224
  CLUS_3              1               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"

Clustering(371) Variable = FZD10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FZD10 MUTATED        0      0      0      0
  FZD10 WILD-TYPE      5      7      5      3
D371V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FZD10 MUTATED        0      0      0
  FZD10 WILD-TYPE      7      9      4
D371V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FZD10 MUTATED        1      8      8     11
  FZD10 WILD-TYPE     64    202     64    120
D371V3, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             8             202
  CLUS_3             8              64
  CLUS_4            11             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FZD10 MUTATED        5      7     15
  FZD10 WILD-TYPE    126    131    146
D371V4, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             5             126
  CLUS_2             7             131
  CLUS_3            15             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FZD10 MUTATED        2      3      5
  FZD10 WILD-TYPE     40     68     58
D371V5, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             3              68
  CLUS_3             5              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FZD10 MUTATED        1      2      4      1      2
  FZD10 WILD-TYPE     38     30     39     29     30
D371V6, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             1              38
  CLUS_2             2              30
  CLUS_3             4              39
  CLUS_4             1              29
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FZD10 MUTATED        6     12     10
  FZD10 WILD-TYPE    144    173    133
D371V7, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             6             144
  CLUS_2            12             173
  CLUS_3            10             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FZD10 MUTATED        5      7      5      3      3      3      2
  FZD10 WILD-TYPE     67    102     85     41     46     43     66
D371V8, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             5              67
  CLUS_2             7             102
  CLUS_3             5              85
  CLUS_4             3              41
  CLUS_5             3              46
  CLUS_6             3              43
  CLUS_7             2              66
[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
  FZD10 MUTATED        6     20      2
  FZD10 WILD-TYPE    169    191     88
D371V9, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             6             169
  CLUS_2            20             191
  CLUS_3             2              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
  FZD10 MUTATED        1     14      4      9
  FZD10 WILD-TYPE     69    172    127     80
D371V10, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             1              69
  CLUS_2            14             172
  CLUS_3             4             127
  CLUS_4             9              80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FZD10 MUTATED       10     14      2
  FZD10 WILD-TYPE    131    168     87
D371V11, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1            10             131
  CLUS_2            14             168
  CLUS_3             2              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
  FZD10 MUTATED        3     19      4
  FZD10 WILD-TYPE     91    214     81
D371V12, multiclass
        clus
vv       FZD10 MUTATED FZD10 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            19             214
  CLUS_3             4              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"

Clustering(372) Variable = TEC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TEC MUTATED        1      0      0      0
  TEC WILD-TYPE      4      7      5      3
D372V1, multiclass
[1] "Remove cluster labels:" "TEC MUTATED"           
clus
  TEC MUTATED TEC WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1676 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEC MUTATED        0      0      1
  TEC WILD-TYPE      7      9      3
D372V2, multiclass
[1] "Remove cluster labels:" "TEC MUTATED"           
clus
  TEC MUTATED TEC WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-64-1676 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" "TEC WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TEC MUTATED        2      2      4      3
  TEC WILD-TYPE     63    208     68    128
D372V3, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           2            63
  CLUS_2           2           208
  CLUS_3           4            68
  CLUS_4           3           128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEC MUTATED        3      5      1
  TEC WILD-TYPE    128    133    160
D372V4, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           3           128
  CLUS_2           5           133
  CLUS_3           1           160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEC MUTATED        0      3      0
  TEC WILD-TYPE     42     68     63
D372V5, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           0            42
  CLUS_2           3            68
  CLUS_3           0            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 CLUS_4 CLUS_5
  TEC MUTATED        0      0      3      0      0
  TEC WILD-TYPE     39     32     40     30     32
D372V6, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           0            39
  CLUS_2           0            32
  CLUS_3           3            40
  CLUS_4           0            30
  CLUS_5           0            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEC MUTATED        0      7      4
  TEC WILD-TYPE    150    178    139
D372V7, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           0           150
  CLUS_2           7           178
  CLUS_3           4           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TEC MUTATED        0      2      3      0      2      3      1
  TEC WILD-TYPE     72    107     87     44     47     43     67
D372V8, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           0            72
  CLUS_2           2           107
  CLUS_3           3            87
  CLUS_4           0            44
  CLUS_5           2            47
  CLUS_6           3            43
  CLUS_7           1            67
[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
  TEC MUTATED        1      8      2
  TEC WILD-TYPE    174    203     88
D372V9, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           1           174
  CLUS_2           8           203
  CLUS_3           2            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
  TEC MUTATED        1      5      1      4
  TEC WILD-TYPE     69    181    130     85
D372V10, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           1            69
  CLUS_2           5           181
  CLUS_3           1           130
  CLUS_4           4            85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TEC MUTATED        5      4      0
  TEC WILD-TYPE    136    178     89
D372V11, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           5           136
  CLUS_2           4           178
  CLUS_3           0            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
  TEC MUTATED        0      7      2
  TEC WILD-TYPE     94    226     83
D372V12, multiclass
        clus
vv       TEC MUTATED TEC WILD-TYPE
  CLUS_1           0            94
  CLUS_2           7           226
  CLUS_3           2            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"

Clustering(373) Variable = MARCH6 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MARCH6 MUTATED        0      1      0      0
  MARCH6 WILD-TYPE      5      6      5      3
D373V1, multiclass
[1] "Remove cluster labels:" "MARCH6 MUTATED"        
clus
  MARCH6 MUTATED MARCH6 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MARCH6 MUTATED        0      1      0
  MARCH6 WILD-TYPE      7      8      4
D373V2, multiclass
[1] "Remove cluster labels:" "MARCH6 MUTATED"        
clus
  MARCH6 MUTATED MARCH6 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3919       TCGA-44-4112 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" "MARCH6 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MARCH6 MUTATED        1      4      4      4
  MARCH6 WILD-TYPE     64    206     68    127
D373V3, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              1               64
  CLUS_2              4              206
  CLUS_3              4               68
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MARCH6 MUTATED        2      2      6
  MARCH6 WILD-TYPE    129    136    155
D373V4, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              2              136
  CLUS_3              6              155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MARCH6 MUTATED        3      1      0
  MARCH6 WILD-TYPE     39     70     63
D373V5, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              1               70
  CLUS_3              0               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 CLUS_4 CLUS_5
  MARCH6 MUTATED        0      0      1      0      3
  MARCH6 WILD-TYPE     39     32     42     30     29
D373V6, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              0               32
  CLUS_3              1               42
  CLUS_4              0               30
  CLUS_5              3               29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MARCH6 MUTATED        3      8      2
  MARCH6 WILD-TYPE    147    177    141
D373V7, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              3              147
  CLUS_2              8              177
  CLUS_3              2              141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MARCH6 MUTATED        3      5      3      1      1      0      0
  MARCH6 WILD-TYPE     69    104     87     43     48     46     68
D373V8, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              3               69
  CLUS_2              5              104
  CLUS_3              3               87
  CLUS_4              1               43
  CLUS_5              1               48
  CLUS_6              0               46
  CLUS_7              0               68
[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
  MARCH6 MUTATED        5      7      1
  MARCH6 WILD-TYPE    170    204     89
D373V9, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              5              170
  CLUS_2              7              204
  CLUS_3              1               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
  MARCH6 MUTATED        2      5      1      5
  MARCH6 WILD-TYPE     68    181    130     84
D373V10, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              5              181
  CLUS_3              1              130
  CLUS_4              5               84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MARCH6 MUTATED        4      5      0
  MARCH6 WILD-TYPE    137    177     89
D373V11, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              5              177
  CLUS_3              0               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
  MARCH6 MUTATED        1      5      3
  MARCH6 WILD-TYPE     93    228     82
D373V12, multiclass
        clus
vv       MARCH6 MUTATED MARCH6 WILD-TYPE
  CLUS_1              1               93
  CLUS_2              5              228
  CLUS_3              3               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"

Clustering(374) Variable = AIFM3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AIFM3 MUTATED        0      0      0      0
  AIFM3 WILD-TYPE      5      7      5      3
D374V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM3 MUTATED        0      0      0
  AIFM3 WILD-TYPE      7      9      4
D374V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AIFM3 MUTATED        1      1      2      2
  AIFM3 WILD-TYPE     64    209     70    129
D374V3, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             1             209
  CLUS_3             2              70
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM3 MUTATED        0      3      3
  AIFM3 WILD-TYPE    131    135    158
D374V4, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             3             135
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM3 MUTATED        0      0      1
  AIFM3 WILD-TYPE     42     71     62
D374V5, multiclass
[1] "Remove cluster labels:" "AIFM3 MUTATED"         
clus
  AIFM3 MUTATED AIFM3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AIFM3 MUTATED        0      0      1      0      0
  AIFM3 WILD-TYPE     39     32     42     30     32
D374V6, multiclass
[1] "Remove cluster labels:" "AIFM3 MUTATED"         
clus
  AIFM3 MUTATED AIFM3 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1679      TCGA-64-1681      TCGA-64-5774 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5781      TCGA-67-3771      TCGA-67-6215 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-71-6725 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4659      TCGA-73-4675      TCGA-73-4676 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-6203 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6207      TCGA-75-6211      TCGA-75-6212 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-75-6214      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7147      TCGA-78-7148 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7149      TCGA-78-7150      TCGA-78-7152      TCGA-78-7153 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" "AIFM3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM3 MUTATED        0      4      2
  AIFM3 WILD-TYPE    150    181    141
D374V7, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             4             181
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AIFM3 MUTATED        0      2      2      0      1      1      0
  AIFM3 WILD-TYPE     72    107     88     44     48     45     68
D374V8, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             0              68
[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
  AIFM3 MUTATED        0      5      1
  AIFM3 WILD-TYPE    175    206     89
D374V9, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             0             175
  CLUS_2             5             206
  CLUS_3             1              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
  AIFM3 MUTATED        0      4      0      2
  AIFM3 WILD-TYPE     70    182    131     87
D374V10, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             4             182
  CLUS_3             0             131
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM3 MUTATED        1      5      0
  AIFM3 WILD-TYPE    140    177     89
D374V11, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             5             177
  CLUS_3             0              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
  AIFM3 MUTATED        0      6      0
  AIFM3 WILD-TYPE     94    227     85
D374V12, multiclass
        clus
vv       AIFM3 MUTATED AIFM3 WILD-TYPE
  CLUS_1             0              94
  CLUS_2             6             227
  CLUS_3             0              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"

Clustering(375) Variable = MSRB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSRB2 MUTATED        0      0      1      0
  MSRB2 WILD-TYPE      5      7      4      3
D375V1, multiclass
[1] "Remove cluster labels:" "MSRB2 MUTATED"         
clus
  MSRB2 MUTATED MSRB2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MSRB2 MUTATED        1      0      0
  MSRB2 WILD-TYPE      6      9      4
D375V2, multiclass
[1] "Remove cluster labels:" "MSRB2 MUTATED"         
clus
  MSRB2 MUTATED MSRB2 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" "MSRB2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MSRB2 MUTATED        0      4      1      1
  MSRB2 WILD-TYPE     65    206     71    130
D375V3, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             4             206
  CLUS_3             1              71
  CLUS_4             1             130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MSRB2 MUTATED        0      2      3
  MSRB2 WILD-TYPE    131    136    158
D375V4, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             0             131
  CLUS_2             2             136
  CLUS_3             3             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MSRB2 MUTATED        1      1      1
  MSRB2 WILD-TYPE     41     70     62
D375V5, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             1              41
  CLUS_2             1              70
  CLUS_3             1              62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MSRB2 MUTATED        0      0      1      0      2
  MSRB2 WILD-TYPE     39     32     42     30     30
D375V6, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             1              42
  CLUS_4             0              30
  CLUS_5             2              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MSRB2 MUTATED        1      4      1
  MSRB2 WILD-TYPE    149    181    142
D375V7, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             4             181
  CLUS_3             1             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MSRB2 MUTATED        1      2      2      0      0      1      0
  MSRB2 WILD-TYPE     71    107     88     44     49     45     68
D375V8, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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
  MSRB2 MUTATED        2      3      1
  MSRB2 WILD-TYPE    173    208     89
D375V9, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             3             208
  CLUS_3             1              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
  MSRB2 MUTATED        1      3      1      1
  MSRB2 WILD-TYPE     69    183    130     88
D375V10, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             1              88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MSRB2 MUTATED        1      3      0
  MSRB2 WILD-TYPE    140    179     89
D375V11, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             1             140
  CLUS_2             3             179
  CLUS_3             0              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
  MSRB2 MUTATED        1      2      1
  MSRB2 WILD-TYPE     93    231     84
D375V12, multiclass
        clus
vv       MSRB2 MUTATED MSRB2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             2             231
  CLUS_3             1              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"

Clustering(376) Variable = KDM3B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM3B MUTATED        1      1      0      0
  KDM3B WILD-TYPE      4      6      5      3
D376V1, multiclass
[1] "Remove cluster labels:" "KDM3B MUTATED"         
clus
  KDM3B MUTATED KDM3B WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-55-1592      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        0      1      1
  KDM3B WILD-TYPE      7      8      3
D376V2, multiclass
[1] "Remove cluster labels:" "KDM3B MUTATED"         
clus
  KDM3B MUTATED KDM3B WILD-TYPE 
              2              18 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3398      TCGA-44-3919      TCGA-44-4112 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-55-1592      TCGA-64-1676      TCGA-64-1677      TCGA-67-3771 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
     TCGA-67-3772      TCGA-67-3773 
"KDM3B WILD-TYPE" "KDM3B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM3B MUTATED        1      7      3      3
  KDM3B WILD-TYPE     64    203     69    128
D376V3, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             1              64
  CLUS_2             7             203
  CLUS_3             3              69
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        3      4      5
  KDM3B WILD-TYPE    128    134    156
D376V4, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             3             128
  CLUS_2             4             134
  CLUS_3             5             156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        0      4      0
  KDM3B WILD-TYPE     42     67     63
D376V5, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             0              42
  CLUS_2             4              67
  CLUS_3             0              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 CLUS_4 CLUS_5
  KDM3B MUTATED        0      0      4      0      0
  KDM3B WILD-TYPE     39     32     39     30     32
D376V6, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             0              39
  CLUS_2             0              32
  CLUS_3             4              39
  CLUS_4             0              30
  CLUS_5             0              32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        4      7      3
  KDM3B WILD-TYPE    146    178    140
D376V7, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             4             146
  CLUS_2             7             178
  CLUS_3             3             140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KDM3B MUTATED        0      5      4      2      1      1      1
  KDM3B WILD-TYPE     72    104     86     42     48     45     67
D376V8, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             0              72
  CLUS_2             5             104
  CLUS_3             4              86
  CLUS_4             2              42
  CLUS_5             1              48
  CLUS_6             1              45
  CLUS_7             1              67
[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
  KDM3B MUTATED        5      6      2
  KDM3B WILD-TYPE    170    205     88
D376V9, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             5             170
  CLUS_2             6             205
  CLUS_3             2              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
  KDM3B MUTATED        1      4      5      3
  KDM3B WILD-TYPE     69    182    126     86
D376V10, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             1              69
  CLUS_2             4             182
  CLUS_3             5             126
  CLUS_4             3              86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM3B MUTATED        2      5      4
  KDM3B WILD-TYPE    139    177     85
D376V11, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             2             139
  CLUS_2             5             177
  CLUS_3             4              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
  KDM3B MUTATED        2      9      0
  KDM3B WILD-TYPE     92    224     85
D376V12, multiclass
        clus
vv       KDM3B MUTATED KDM3B WILD-TYPE
  CLUS_1             2              92
  CLUS_2             9             224
  CLUS_3             0              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"

Clustering(377) Variable = THPO MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THPO MUTATED        0      0      0      0
  THPO WILD-TYPE      5      7      5      3
D377V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THPO MUTATED        0      0      0
  THPO WILD-TYPE      7      9      4
D377V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THPO MUTATED        0      4      1      3
  THPO WILD-TYPE     65    206     71    128
D377V3, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            0             65
  CLUS_2            4            206
  CLUS_3            1             71
  CLUS_4            3            128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THPO MUTATED        1      3      4
  THPO WILD-TYPE    130    135    157
D377V4, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            1            130
  CLUS_2            3            135
  CLUS_3            4            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THPO MUTATED        0      0      0
  THPO WILD-TYPE     42     71     63
D377V5, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THPO MUTATED        0      0      0      0      0
  THPO WILD-TYPE     39     32     43     30     32
D377V6, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THPO MUTATED        1      5      2
  THPO WILD-TYPE    149    180    141
D377V7, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            1            149
  CLUS_2            5            180
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  THPO MUTATED        0      2      3      1      0      1      1
  THPO WILD-TYPE     72    107     87     43     49     45     67
D377V8, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            0             72
  CLUS_2            2            107
  CLUS_3            3             87
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            1             67
[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
  THPO MUTATED        3      4      1
  THPO WILD-TYPE    172    207     89
D377V9, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            3            172
  CLUS_2            4            207
  CLUS_3            1             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
  THPO MUTATED        1      2      2      3
  THPO WILD-TYPE     69    184    129     86
D377V10, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2            184
  CLUS_3            2            129
  CLUS_4            3             86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THPO MUTATED        0      5      3
  THPO WILD-TYPE    141    177     86
D377V11, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            0            141
  CLUS_2            5            177
  CLUS_3            3             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
  THPO MUTATED        2      6      0
  THPO WILD-TYPE     92    227     85
D377V12, multiclass
        clus
vv       THPO MUTATED THPO WILD-TYPE
  CLUS_1            2             92
  CLUS_2            6            227
  CLUS_3            0             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"

Clustering(378) Variable = CACNA1F MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA1F MUTATED        0      0      0      0
  CACNA1F WILD-TYPE      5      7      5      3
D378V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        0      0      0
  CACNA1F WILD-TYPE      7      9      4
D378V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA1F MUTATED        3     12      4      8
  CACNA1F WILD-TYPE     62    198     68    123
D378V3, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               3                62
  CLUS_2              12               198
  CLUS_3               4                68
  CLUS_4               8               123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        7      9     10
  CACNA1F WILD-TYPE    124    129    151
D378V4, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               7               124
  CLUS_2               9               129
  CLUS_3              10               151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        3      2      3
  CACNA1F WILD-TYPE     39     69     60
D378V5, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               3                39
  CLUS_2               2                69
  CLUS_3               3                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
  CACNA1F MUTATED        2      0      1      3      2
  CACNA1F WILD-TYPE     37     32     42     27     30
D378V6, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               2                37
  CLUS_2               0                32
  CLUS_3               1                42
  CLUS_4               3                27
  CLUS_5               2                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        8     13      6
  CACNA1F WILD-TYPE    142    172    137
D378V7, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               8               142
  CLUS_2              13               172
  CLUS_3               6               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CACNA1F MUTATED        1      5      7      1      1      5      7
  CACNA1F WILD-TYPE     71    104     83     43     48     41     61
D378V8, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               1                71
  CLUS_2               5               104
  CLUS_3               7                83
  CLUS_4               1                43
  CLUS_5               1                48
  CLUS_6               5                41
  CLUS_7               7                61
[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
  CACNA1F MUTATED       10     17      0
  CACNA1F WILD-TYPE    165    194     90
D378V9, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1              10               165
  CLUS_2              17               194
  CLUS_3               0                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
  CACNA1F MUTATED        4     10      8      5
  CACNA1F WILD-TYPE     66    176    123     84
D378V10, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               4                66
  CLUS_2              10               176
  CLUS_3               8               123
  CLUS_4               5                84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        8     14      4
  CACNA1F WILD-TYPE    133    168     85
D378V11, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               8               133
  CLUS_2              14               168
  CLUS_3               4                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
  CACNA1F MUTATED        4     16      6
  CACNA1F WILD-TYPE     90    217     79
D378V12, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               4                90
  CLUS_2              16               217
  CLUS_3               6                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"

Clustering(379) Variable = SELE MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SELE MUTATED        0      0      0      0
  SELE WILD-TYPE      5      7      5      3
D379V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELE MUTATED        0      0      0
  SELE WILD-TYPE      7      9      4
D379V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SELE MUTATED        0      8      3      1
  SELE WILD-TYPE     65    202     69    130
D379V3, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            0             65
  CLUS_2            8            202
  CLUS_3            3             69
  CLUS_4            1            130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELE MUTATED        5      5      2
  SELE WILD-TYPE    126    133    159
D379V4, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            5            126
  CLUS_2            5            133
  CLUS_3            2            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELE MUTATED        2      1      1
  SELE WILD-TYPE     40     70     62
D379V5, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1             70
  CLUS_3            1             62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SELE MUTATED        0      0      0      2      2
  SELE WILD-TYPE     39     32     43     28     30
D379V6, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            0             39
  CLUS_2            0             32
  CLUS_3            0             43
  CLUS_4            2             28
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELE MUTATED        3      7      2
  SELE WILD-TYPE    147    178    141
D379V7, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            3            147
  CLUS_2            7            178
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SELE MUTATED        0      1      3      1      0      5      2
  SELE WILD-TYPE     72    108     87     43     49     41     66
D379V8, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            3             87
  CLUS_4            1             43
  CLUS_5            0             49
  CLUS_6            5             41
  CLUS_7            2             66
[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
  SELE MUTATED        3      2      7
  SELE WILD-TYPE    172    209     83
D379V9, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            3            172
  CLUS_2            2            209
  CLUS_3            7             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
  SELE MUTATED        1      6      3      2
  SELE WILD-TYPE     69    180    128     87
D379V10, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            1             69
  CLUS_2            6            180
  CLUS_3            3            128
  CLUS_4            2             87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SELE MUTATED        3      4      5
  SELE WILD-TYPE    138    178     84
D379V11, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            3            138
  CLUS_2            4            178
  CLUS_3            5             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
  SELE MUTATED        1      9      2
  SELE WILD-TYPE     93    224     83
D379V12, multiclass
        clus
vv       SELE MUTATED SELE WILD-TYPE
  CLUS_1            1             93
  CLUS_2            9            224
  CLUS_3            2             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"

Clustering(380) Variable = THY1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THY1 MUTATED        0      0      0      0
  THY1 WILD-TYPE      5      7      5      3
D380V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THY1 MUTATED        0      0      0
  THY1 WILD-TYPE      7      9      4
D380V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  THY1 MUTATED        2      1      0      2
  THY1 WILD-TYPE     63    209     72    129
D380V3, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            2             63
  CLUS_2            1            209
  CLUS_3            0             72
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THY1 MUTATED        0      4      1
  THY1 WILD-TYPE    131    134    160
D380V4, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            0            131
  CLUS_2            4            134
  CLUS_3            1            160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THY1 MUTATED        0      0      0
  THY1 WILD-TYPE     42     71     63
D380V5, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  THY1 MUTATED        0      0      0      0      0
  THY1 WILD-TYPE     39     32     43     30     32
D380V6, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THY1 MUTATED        0      3      2
  THY1 WILD-TYPE    150    182    141
D380V7, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            0            150
  CLUS_2            3            182
  CLUS_3            2            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  THY1 MUTATED        0      1      3      0      1      0      0
  THY1 WILD-TYPE     72    108     87     44     48     46     68
D380V8, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            0             72
  CLUS_2            1            108
  CLUS_3            3             87
  CLUS_4            0             44
  CLUS_5            1             48
  CLUS_6            0             46
  CLUS_7            0             68
[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
  THY1 MUTATED        1      3      1
  THY1 WILD-TYPE    174    208     89
D380V9, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            1            174
  CLUS_2            3            208
  CLUS_3            1             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
  THY1 MUTATED        0      4      0      1
  THY1 WILD-TYPE     70    182    131     88
D380V10, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            4            182
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  THY1 MUTATED        2      2      1
  THY1 WILD-TYPE    139    180     88
D380V11, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            2            180
  CLUS_3            1             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
  THY1 MUTATED        0      4      1
  THY1 WILD-TYPE     94    229     84
D380V12, multiclass
        clus
vv       THY1 MUTATED THY1 WILD-TYPE
  CLUS_1            0             94
  CLUS_2            4            229
  CLUS_3            1             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"

Clustering(381) Variable = TTK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTK MUTATED        0      0      0      0
  TTK WILD-TYPE      5      7      5      3
D381V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TTK MUTATED        0      0      0
  TTK WILD-TYPE      7      9      4
D381V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TTK MUTATED        2      9      1      6
  TTK WILD-TYPE     63    201     71    125
D381V3, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           2            63
  CLUS_2           9           201
  CLUS_3           1            71
  CLUS_4           6           125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TTK MUTATED        3      5      6
  TTK WILD-TYPE    128    133    155
D381V4, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           3           128
  CLUS_2           5           133
  CLUS_3           6           155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TTK MUTATED        2      5      0
  TTK WILD-TYPE     40     66     63
D381V5, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           2            40
  CLUS_2           5            66
  CLUS_3           0            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 CLUS_4 CLUS_5
  TTK MUTATED        1      0      3      0      3
  TTK WILD-TYPE     38     32     40     30     29
D381V6, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           1            38
  CLUS_2           0            32
  CLUS_3           3            40
  CLUS_4           0            30
  CLUS_5           3            29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TTK MUTATED        5     10      3
  TTK WILD-TYPE    145    175    140
D381V7, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           5           145
  CLUS_2          10           175
  CLUS_3           3           140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TTK MUTATED        5      8      3      0      1      1      0
  TTK WILD-TYPE     67    101     87     44     48     45     68
D381V8, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           5            67
  CLUS_2           8           101
  CLUS_3           3            87
  CLUS_4           0            44
  CLUS_5           1            48
  CLUS_6           1            45
  CLUS_7           0            68
[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
  TTK MUTATED        5     11      2
  TTK WILD-TYPE    170    200     88
D381V9, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           5           170
  CLUS_2          11           200
  CLUS_3           2            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
  TTK MUTATED        2     12      2      2
  TTK WILD-TYPE     68    174    129     87
D381V10, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           2            68
  CLUS_2          12           174
  CLUS_3           2           129
  CLUS_4           2            87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TTK MUTATED        7      3      4
  TTK WILD-TYPE    134    179     85
D381V11, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           7           134
  CLUS_2           3           179
  CLUS_3           4            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
  TTK MUTATED        2      9      3
  TTK WILD-TYPE     92    224     82
D381V12, multiclass
        clus
vv       TTK MUTATED TTK WILD-TYPE
  CLUS_1           2            92
  CLUS_2           9           224
  CLUS_3           3            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"

Clustering(382) Variable = GGNBP2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGNBP2 MUTATED        0      1      0      0
  GGNBP2 WILD-TYPE      5      6      5      3
D382V1, multiclass
[1] "Remove cluster labels:" "GGNBP2 MUTATED"        
clus
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        0      1      0
  GGNBP2 WILD-TYPE      7      8      4
D382V2, multiclass
[1] "Remove cluster labels:" "GGNBP2 MUTATED"        
clus
  GGNBP2 MUTATED GGNBP2 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" "GGNBP2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGNBP2 MUTATED        2      6      1      2
  GGNBP2 WILD-TYPE     63    204     71    129
D382V3, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              6              204
  CLUS_3              1               71
  CLUS_4              2              129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        4      4      2
  GGNBP2 WILD-TYPE    127    134    159
D382V4, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              4              127
  CLUS_2              4              134
  CLUS_3              2              159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        1      2      1
  GGNBP2 WILD-TYPE     41     69     62
D382V5, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              2               69
  CLUS_3              1               62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GGNBP2 MUTATED        1      0      2      0      1
  GGNBP2 WILD-TYPE     38     32     41     30     31
D382V6, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              2               41
  CLUS_4              0               30
  CLUS_5              1               31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        3      5      3
  GGNBP2 WILD-TYPE    147    180    140
D382V7, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              3              147
  CLUS_2              5              180
  CLUS_3              3              140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GGNBP2 MUTATED        1      3      3      0      1      2      1
  GGNBP2 WILD-TYPE     71    106     87     44     48     44     67
D382V8, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              3              106
  CLUS_3              3               87
  CLUS_4              0               44
  CLUS_5              1               48
  CLUS_6              2               44
  CLUS_7              1               67
[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
  GGNBP2 MUTATED        2      6      3
  GGNBP2 WILD-TYPE    173    205     87
D382V9, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              2              173
  CLUS_2              6              205
  CLUS_3              3               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
  GGNBP2 MUTATED        1      5      2      3
  GGNBP2 WILD-TYPE     69    181    129     86
D382V10, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              5              181
  CLUS_3              2              129
  CLUS_4              3               86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GGNBP2 MUTATED        4      3      2
  GGNBP2 WILD-TYPE    137    179     87
D382V11, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              4              137
  CLUS_2              3              179
  CLUS_3              2               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
  GGNBP2 MUTATED        0      8      1
  GGNBP2 WILD-TYPE     94    225     84
D382V12, multiclass
        clus
vv       GGNBP2 MUTATED GGNBP2 WILD-TYPE
  CLUS_1              0               94
  CLUS_2              8              225
  CLUS_3              1               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"

Clustering(383) Variable = ADAM23 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM23 MUTATED        0      1      0      0
  ADAM23 WILD-TYPE      5      6      5      3
D383V1, multiclass
[1] "Remove cluster labels:" "ADAM23 MUTATED"        
clus
  ADAM23 MUTATED ADAM23 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4250       TCGA-35-4122       TCGA-35-4123 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM23 MUTATED        0      1      0
  ADAM23 WILD-TYPE      7      8      4
D383V2, multiclass
[1] "Remove cluster labels:" "ADAM23 MUTATED"        
clus
  ADAM23 MUTATED ADAM23 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4250       TCGA-35-4122       TCGA-35-4123 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-44-2656       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" "ADAM23 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ADAM23 MUTATED        2      8      6     11
  ADAM23 WILD-TYPE     63    202     66    120
D383V3, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              2               63
  CLUS_2              8              202
  CLUS_3              6               66
  CLUS_4             11              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM23 MUTATED        7     11      8
  ADAM23 WILD-TYPE    124    127    153
D383V4, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              7              124
  CLUS_2             11              127
  CLUS_3              8              153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM23 MUTATED        1      3      6
  ADAM23 WILD-TYPE     41     68     57
D383V5, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3               68
  CLUS_3              6               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 CLUS_4 CLUS_5
  ADAM23 MUTATED        1      0      5      4      0
  ADAM23 WILD-TYPE     38     32     38     26     32
D383V6, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              1               38
  CLUS_2              0               32
  CLUS_3              5               38
  CLUS_4              4               26
  CLUS_5              0               32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM23 MUTATED        9     13      5
  ADAM23 WILD-TYPE    141    172    138
D383V7, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              9              141
  CLUS_2             13              172
  CLUS_3              5              138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ADAM23 MUTATED        4      6      9      0      3      1      4
  ADAM23 WILD-TYPE     68    103     81     44     46     45     64
D383V8, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              4               68
  CLUS_2              6              103
  CLUS_3              9               81
  CLUS_4              0               44
  CLUS_5              3               46
  CLUS_6              1               45
  CLUS_7              4               64
[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
  ADAM23 MUTATED        1     17      9
  ADAM23 WILD-TYPE    174    194     81
D383V9, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              1              174
  CLUS_2             17              194
  CLUS_3              9               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
  ADAM23 MUTATED        0     13      6      8
  ADAM23 WILD-TYPE     70    173    125     81
D383V10, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              0               70
  CLUS_2             13              173
  CLUS_3              6              125
  CLUS_4              8               81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ADAM23 MUTATED        8     11      7
  ADAM23 WILD-TYPE    133    171     82
D383V11, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              8              133
  CLUS_2             11              171
  CLUS_3              7               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
  ADAM23 MUTATED        1     20      5
  ADAM23 WILD-TYPE     93    213     80
D383V12, multiclass
        clus
vv       ADAM23 MUTATED ADAM23 WILD-TYPE
  CLUS_1              1               93
  CLUS_2             20              213
  CLUS_3              5               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"

Clustering(384) Variable = CHD8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD8 MUTATED        1      0      1      1
  CHD8 WILD-TYPE      4      7      4      2
D384V1, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            1              4
  CLUS_2            0              7
  CLUS_3            1              4
  CLUS_4            1              2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD8 MUTATED        1      0      2
  CHD8 WILD-TYPE      6      9      2
D384V2, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            0              9
  CLUS_3            2              2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD8 MUTATED        3     11      4      6
  CHD8 WILD-TYPE     62    199     68    125
D384V3, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            3             62
  CLUS_2           11            199
  CLUS_3            4             68
  CLUS_4            6            125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD8 MUTATED        7      8      5
  CHD8 WILD-TYPE    124    130    156
D384V4, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            7            124
  CLUS_2            8            130
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD8 MUTATED        3      2      3
  CHD8 WILD-TYPE     39     69     60
D384V5, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            2             69
  CLUS_3            3             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
  CHD8 MUTATED        0      2      3      1      2
  CHD8 WILD-TYPE     39     30     40     29     30
D384V6, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            0             39
  CLUS_2            2             30
  CLUS_3            3             40
  CLUS_4            1             29
  CLUS_5            2             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD8 MUTATED        6     13      5
  CHD8 WILD-TYPE    144    172    138
D384V7, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            6            144
  CLUS_2           13            172
  CLUS_3            5            138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CHD8 MUTATED        2      7      7      2      2      1      3
  CHD8 WILD-TYPE     70    102     83     42     47     45     65
D384V8, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            2             70
  CLUS_2            7            102
  CLUS_3            7             83
  CLUS_4            2             42
  CLUS_5            2             47
  CLUS_6            1             45
  CLUS_7            3             65
[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
  CHD8 MUTATED       11     11      2
  CHD8 WILD-TYPE    164    200     88
D384V9, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1           11            164
  CLUS_2           11            200
  CLUS_3            2             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
  CHD8 MUTATED        4      7      9      4
  CHD8 WILD-TYPE     66    179    122     85
D384V10, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            4             66
  CLUS_2            7            179
  CLUS_3            9            122
  CLUS_4            4             85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD8 MUTATED        6     10      4
  CHD8 WILD-TYPE    135    172     85
D384V11, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            6            135
  CLUS_2           10            172
  CLUS_3            4             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
  CHD8 MUTATED        3     14      3
  CHD8 WILD-TYPE     91    219     82
D384V12, multiclass
        clus
vv       CHD8 MUTATED CHD8 WILD-TYPE
  CLUS_1            3             91
  CLUS_2           14            219
  CLUS_3            3             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"

Clustering(385) Variable = TBC1D14 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D14 MUTATED        0      0      0      0
  TBC1D14 WILD-TYPE      5      7      5      3
D385V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D14 MUTATED        0      0      0
  TBC1D14 WILD-TYPE      7      9      4
D385V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D14 MUTATED        1      3      1      3
  TBC1D14 WILD-TYPE     64    207     71    128
D385V3, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               1                64
  CLUS_2               3               207
  CLUS_3               1                71
  CLUS_4               3               128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D14 MUTATED        1      3      4
  TBC1D14 WILD-TYPE    130    135    157
D385V4, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               1               130
  CLUS_2               3               135
  CLUS_3               4               157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D14 MUTATED        0      0      0
  TBC1D14 WILD-TYPE     42     71     63
D385V5, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TBC1D14 MUTATED        0      0      0      0      0
  TBC1D14 WILD-TYPE     39     32     43     30     32
D385V6, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D14 MUTATED        2      4      2
  TBC1D14 WILD-TYPE    148    181    141
D385V7, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               2               148
  CLUS_2               4               181
  CLUS_3               2               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TBC1D14 MUTATED        0      1      4      1      2      0      0
  TBC1D14 WILD-TYPE     72    108     86     43     47     46     68
D385V8, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               1               108
  CLUS_3               4                86
  CLUS_4               1                43
  CLUS_5               2                47
  CLUS_6               0                46
  CLUS_7               0                68
[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
  TBC1D14 MUTATED        2      4      2
  TBC1D14 WILD-TYPE    173    207     88
D385V9, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               2               173
  CLUS_2               4               207
  CLUS_3               2                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
  TBC1D14 MUTATED        1      6      0      1
  TBC1D14 WILD-TYPE     69    180    131     88
D385V10, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               1                69
  CLUS_2               6               180
  CLUS_3               0               131
  CLUS_4               1                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  TBC1D14 MUTATED        1      4      3
  TBC1D14 WILD-TYPE    140    178     86
D385V11, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               1               140
  CLUS_2               4               178
  CLUS_3               3                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
  TBC1D14 MUTATED        1      6      1
  TBC1D14 WILD-TYPE     93    227     84
D385V12, multiclass
        clus
vv       TBC1D14 MUTATED TBC1D14 WILD-TYPE
  CLUS_1               1                93
  CLUS_2               6               227
  CLUS_3               1                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"

Clustering(386) Variable = GPR128 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR128 MUTATED        0      0      1      0
  GPR128 WILD-TYPE      5      7      4      3
D386V1, multiclass
[1] "Remove cluster labels:" "GPR128 MUTATED"        
clus
  GPR128 MUTATED GPR128 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR128 MUTATED        1      0      0
  GPR128 WILD-TYPE      6      9      4
D386V2, multiclass
[1] "Remove cluster labels:" "GPR128 MUTATED"        
clus
  GPR128 MUTATED GPR128 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"GPR128 WILD-TYPE" "GPR128 WILD-TYPE" "GPR128 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR128 MUTATED        4      7      2      4
  GPR128 WILD-TYPE     61    203     70    127
D386V3, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              4               61
  CLUS_2              7              203
  CLUS_3              2               70
  CLUS_4              4              127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR128 MUTATED        2      4     11
  GPR128 WILD-TYPE    129    134    150
D386V4, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              2              129
  CLUS_2              4              134
  CLUS_3             11              150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR128 MUTATED        1      3      3
  GPR128 WILD-TYPE     41     68     60
D386V5, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              1               41
  CLUS_2              3               68
  CLUS_3              3               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
  GPR128 MUTATED        0      2      3      0      2
  GPR128 WILD-TYPE     39     30     40     30     30
D386V6, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              0               39
  CLUS_2              2               30
  CLUS_3              3               40
  CLUS_4              0               30
  CLUS_5              2               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR128 MUTATED        1      9      7
  GPR128 WILD-TYPE    149    176    136
D386V7, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              1              149
  CLUS_2              9              176
  CLUS_3              7              136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GPR128 MUTATED        0      6      4      2      2      2      1
  GPR128 WILD-TYPE     72    103     86     42     47     44     67
D386V8, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              6              103
  CLUS_3              4               86
  CLUS_4              2               42
  CLUS_5              2               47
  CLUS_6              2               44
  CLUS_7              1               67
[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
  GPR128 MUTATED        4     10      3
  GPR128 WILD-TYPE    171    201     87
D386V9, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              4              171
  CLUS_2             10              201
  CLUS_3              3               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
  GPR128 MUTATED        3      8      0      6
  GPR128 WILD-TYPE     67    178    131     83
D386V10, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              8              178
  CLUS_3              0              131
  CLUS_4              6               83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GPR128 MUTATED        3      7      5
  GPR128 WILD-TYPE    138    175     84
D386V11, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              3              138
  CLUS_2              7              175
  CLUS_3              5               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
  GPR128 MUTATED        2     10      3
  GPR128 WILD-TYPE     92    223     82
D386V12, multiclass
        clus
vv       GPR128 MUTATED GPR128 WILD-TYPE
  CLUS_1              2               92
  CLUS_2             10              223
  CLUS_3              3               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"

Clustering(387) Variable = RPL6 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL6 MUTATED        0      0      0      0
  RPL6 WILD-TYPE      5      7      5      3
D387V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL6 MUTATED        0      0      0
  RPL6 WILD-TYPE      7      9      4
D387V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL6 MUTATED        0      0      1      2
  RPL6 WILD-TYPE     65    210     71    129
D387V3, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            0             65
  CLUS_2            0            210
  CLUS_3            1             71
  CLUS_4            2            129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL6 MUTATED        2      1      0
  RPL6 WILD-TYPE    129    137    161
D387V4, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            2            129
  CLUS_2            1            137
  CLUS_3            0            161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL6 MUTATED        0      2      0
  RPL6 WILD-TYPE     42     69     63
D387V5, multiclass
[1] "Remove cluster labels:" "RPL6 MUTATED"          
clus
  RPL6 MUTATED RPL6 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPL6 MUTATED        1      0      1      0      0
  RPL6 WILD-TYPE     38     32     42     30     32
D387V6, multiclass
[1] "Remove cluster labels:" "RPL6 MUTATED"          
clus
  RPL6 MUTATED RPL6 WILD-TYPE 
             2            174 
    TCGA-05-4249     TCGA-05-4384     TCGA-05-4396     TCGA-05-4398 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-4402     TCGA-05-4405     TCGA-05-4410     TCGA-05-4417 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-4418     TCGA-05-4420     TCGA-05-4422     TCGA-05-4426 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-5420     TCGA-05-5423     TCGA-05-5429 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-05-5715     TCGA-38-4626     TCGA-38-4627     TCGA-38-6178 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-2656     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-3396     TCGA-44-3919     TCGA-44-4112     TCGA-44-5645 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6774 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6779 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-7659     TCGA-44-7662     TCGA-44-7670     TCGA-44-7671 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-44-7672     TCGA-49-4486     TCGA-49-4487     TCGA-49-4488 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-4494     TCGA-49-4501     TCGA-49-4505     TCGA-49-4506 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-4507     TCGA-49-4510     TCGA-49-4512     TCGA-49-4514 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6744     TCGA-49-6745     TCGA-49-6761 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-49-6767     TCGA-50-5044     TCGA-50-5049     TCGA-50-5051 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5931     TCGA-50-5932 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-5933     TCGA-50-5936     TCGA-50-5939     TCGA-50-5941 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-5942     TCGA-50-6593     TCGA-50-6595     TCGA-50-6597 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-53-7626     TCGA-53-7813 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-6543     TCGA-55-6712     TCGA-55-6970 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6978     TCGA-55-6979     TCGA-55-6981 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-7573     TCGA-55-7574     TCGA-55-7728 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7911     TCGA-64-1676     TCGA-64-1677 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5778 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-64-5781     TCGA-67-3771     TCGA-67-6215     TCGA-67-6216 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     TCGA-71-6725     TCGA-73-4658 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-73-4659     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-6203     TCGA-75-6205 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-75-7027     TCGA-75-7030     TCGA-75-7031     TCGA-78-7143 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-86-6562     TCGA-86-6851 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-86-7713     TCGA-91-6828     TCGA-91-6829     TCGA-91-6835 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6849     TCGA-91-7771 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-93-7348     TCGA-95-7039     TCGA-95-7043     TCGA-95-7567 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-95-7947     TCGA-95-7948     TCGA-97-7546     TCGA-97-7552 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
    TCGA-97-7941     TCGA-99-7458 
"RPL6 WILD-TYPE" "RPL6 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL6 MUTATED        1      1      1
  RPL6 WILD-TYPE    149    184    142
D387V7, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            1            149
  CLUS_2            1            184
  CLUS_3            1            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RPL6 MUTATED        1      1      0      0      0      1      0
  RPL6 WILD-TYPE     71    108     90     44     49     45     68
D387V8, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            1            108
  CLUS_3            0             90
  CLUS_4            0             44
  CLUS_5            0             49
  CLUS_6            1             45
  CLUS_7            0             68
[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
  RPL6 MUTATED        3      0      0
  RPL6 WILD-TYPE    172    211     90
D387V9, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            3            172
  CLUS_2            0            211
  CLUS_3            0             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
  RPL6 MUTATED        2      1      0      0
  RPL6 WILD-TYPE     68    185    131     89
D387V10, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1            185
  CLUS_3            0            131
  CLUS_4            0             89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL6 MUTATED        2      1      0
  RPL6 WILD-TYPE    139    181     89
D387V11, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            2            139
  CLUS_2            1            181
  CLUS_3            0             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
  RPL6 MUTATED        1      0      2
  RPL6 WILD-TYPE     93    233     83
D387V12, multiclass
        clus
vv       RPL6 MUTATED RPL6 WILD-TYPE
  CLUS_1            1             93
  CLUS_2            0            233
  CLUS_3            2             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"

Clustering(388) Variable = FRZB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRZB MUTATED        0      0      0      0
  FRZB WILD-TYPE      5      7      5      3
D388V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRZB MUTATED        0      0      0
  FRZB WILD-TYPE      7      9      4
D388V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FRZB MUTATED        3      1      1      4
  FRZB WILD-TYPE     62    209     71    127
D388V3, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            3             62
  CLUS_2            1            209
  CLUS_3            1             71
  CLUS_4            4            127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRZB MUTATED        0      3      5
  FRZB WILD-TYPE    131    135    156
D388V4, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            0            131
  CLUS_2            3            135
  CLUS_3            5            156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRZB MUTATED        0      0      0
  FRZB WILD-TYPE     42     71     63
D388V5, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FRZB MUTATED        0      0      0      0      0
  FRZB WILD-TYPE     39     32     43     30     32
D388V6, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRZB MUTATED        2      3      4
  FRZB WILD-TYPE    148    182    139
D388V7, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            2            148
  CLUS_2            3            182
  CLUS_3            4            139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FRZB MUTATED        1      3      1      2      1      0      1
  FRZB WILD-TYPE     71    106     89     42     48     46     67
D388V8, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            1             71
  CLUS_2            3            106
  CLUS_3            1             89
  CLUS_4            2             42
  CLUS_5            1             48
  CLUS_6            0             46
  CLUS_7            1             67
[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
  FRZB MUTATED        2      5      1
  FRZB WILD-TYPE    173    206     89
D388V9, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            2            173
  CLUS_2            5            206
  CLUS_3            1             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
  FRZB MUTATED        2      5      0      1
  FRZB WILD-TYPE     68    181    131     88
D388V10, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            2             68
  CLUS_2            5            181
  CLUS_3            0            131
  CLUS_4            1             88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FRZB MUTATED        1      5      1
  FRZB WILD-TYPE    140    177     88
D388V11, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            1            140
  CLUS_2            5            177
  CLUS_3            1             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
  FRZB MUTATED        3      3      1
  FRZB WILD-TYPE     91    230     84
D388V12, multiclass
        clus
vv       FRZB MUTATED FRZB WILD-TYPE
  CLUS_1            3             91
  CLUS_2            3            230
  CLUS_3            1             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"

Clustering(389) Variable = USP34 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP34 MUTATED        0      1      0      0
  USP34 WILD-TYPE      5      6      5      3
D389V1, multiclass
[1] "Remove cluster labels:" "USP34 MUTATED"         
clus
  USP34 MUTATED USP34 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        0      1      0
  USP34 WILD-TYPE      7      8      4
D389V2, multiclass
[1] "Remove cluster labels:" "USP34 MUTATED"         
clus
  USP34 MUTATED USP34 WILD-TYPE 
              1              19 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-35-4122 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-35-4123      TCGA-44-2656      TCGA-44-2657      TCGA-44-2661 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-3919      TCGA-44-4112 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-55-1592      TCGA-55-1595      TCGA-64-1676      TCGA-64-1677 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-3772      TCGA-67-3773 
"USP34 WILD-TYPE" "USP34 WILD-TYPE" "USP34 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  USP34 MUTATED        2      9      2     10
  USP34 WILD-TYPE     63    201     70    121
D389V3, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             2              63
  CLUS_2             9             201
  CLUS_3             2              70
  CLUS_4            10             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        3      8     10
  USP34 WILD-TYPE    128    130    151
D389V4, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             3             128
  CLUS_2             8             130
  CLUS_3            10             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        4      4      3
  USP34 WILD-TYPE     38     67     60
D389V5, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             4              67
  CLUS_3             3              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
  USP34 MUTATED        2      2      1      2      4
  USP34 WILD-TYPE     37     30     42     28     28
D389V6, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             2              37
  CLUS_2             2              30
  CLUS_3             1              42
  CLUS_4             2              28
  CLUS_5             4              28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        5     10      8
  USP34 WILD-TYPE    145    175    135
D389V7, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             5             145
  CLUS_2            10             175
  CLUS_3             8             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  USP34 MUTATED        3      5      8      1      2      2      2
  USP34 WILD-TYPE     69    104     82     43     47     44     66
D389V8, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             3              69
  CLUS_2             5             104
  CLUS_3             8              82
  CLUS_4             1              43
  CLUS_5             2              47
  CLUS_6             2              44
  CLUS_7             2              66
[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
  USP34 MUTATED        6     14      3
  USP34 WILD-TYPE    169    197     87
D389V9, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             6             169
  CLUS_2            14             197
  CLUS_3             3              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
  USP34 MUTATED        2      9      4      8
  USP34 WILD-TYPE     68    177    127     81
D389V10, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             9             177
  CLUS_3             4             127
  CLUS_4             8              81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  USP34 MUTATED        6     10      5
  USP34 WILD-TYPE    135    172     84
D389V11, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             6             135
  CLUS_2            10             172
  CLUS_3             5              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
  USP34 MUTATED        3     14      4
  USP34 WILD-TYPE     91    219     81
D389V12, multiclass
        clus
vv       USP34 MUTATED USP34 WILD-TYPE
  CLUS_1             3              91
  CLUS_2            14             219
  CLUS_3             4              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"

Clustering(390) Variable = LCK MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCK MUTATED        0      0      0      1
  LCK WILD-TYPE      5      7      5      2
D390V1, multiclass
[1] "Remove cluster labels:" "LCK MUTATED"           
clus
  LCK MUTATED LCK WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-64-1676    TCGA-64-1677    TCGA-67-3772    TCGA-67-3773 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        0      0      1
  LCK WILD-TYPE      7      9      3
D390V2, multiclass
[1] "Remove cluster labels:" "LCK MUTATED"           
clus
  LCK MUTATED LCK WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4122    TCGA-35-4123 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-44-2656    TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-44-3918    TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
   TCGA-64-1676    TCGA-64-1677    TCGA-67-3772    TCGA-67-3773 
"LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" "LCK WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LCK MUTATED        2      4      1      5
  LCK WILD-TYPE     63    206     71    126
D390V3, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           2            63
  CLUS_2           4           206
  CLUS_3           1            71
  CLUS_4           5           126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        0      4      6
  LCK WILD-TYPE    131    134    155
D390V4, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0           131
  CLUS_2           4           134
  CLUS_3           6           155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        0      2      3
  LCK WILD-TYPE     42     69     60
D390V5, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            42
  CLUS_2           2            69
  CLUS_3           3            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
  LCK MUTATED        1      4      0      0      0
  LCK WILD-TYPE     38     28     43     30     32
D390V6, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           1            38
  CLUS_2           4            28
  CLUS_3           0            43
  CLUS_4           0            30
  CLUS_5           0            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        2      3      7
  LCK WILD-TYPE    148    182    136
D390V7, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           2           148
  CLUS_2           3           182
  CLUS_3           7           136
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LCK MUTATED        0      1      5      2      2      0      2
  LCK WILD-TYPE     72    108     85     42     47     46     66
D390V8, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            72
  CLUS_2           1           108
  CLUS_3           5            85
  CLUS_4           2            42
  CLUS_5           2            47
  CLUS_6           0            46
  CLUS_7           2            66
[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
  LCK MUTATED        0     10      2
  LCK WILD-TYPE    175    201     88
D390V9, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0           175
  CLUS_2          10           201
  CLUS_3           2            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
  LCK MUTATED        0      7      1      4
  LCK WILD-TYPE     70    179    130     85
D390V10, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           0            70
  CLUS_2           7           179
  CLUS_3           1           130
  CLUS_4           4            85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  LCK MUTATED        3      4      3
  LCK WILD-TYPE    138    178     86
D390V11, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           3           138
  CLUS_2           4           178
  CLUS_3           3            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
  LCK MUTATED        2      7      1
  LCK WILD-TYPE     92    226     84
D390V12, multiclass
        clus
vv       LCK MUTATED LCK WILD-TYPE
  CLUS_1           2            92
  CLUS_2           7           226
  CLUS_3           1            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"

Clustering(391) Variable = FN1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FN1 MUTATED        0      1      0      0
  FN1 WILD-TYPE      5      6      5      3
D391V1, multiclass
[1] "Remove cluster labels:" "FN1 MUTATED"           
clus
  FN1 MUTATED FN1 WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4123    TCGA-44-2656 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FN1 MUTATED        0      1      0
  FN1 WILD-TYPE      7      8      4
D391V2, multiclass
[1] "Remove cluster labels:" "FN1 MUTATED"           
clus
  FN1 MUTATED FN1 WILD-TYPE 
            1            19 
   TCGA-05-4244    TCGA-05-4249    TCGA-05-4250    TCGA-35-4123    TCGA-44-2656 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
   TCGA-44-2657    TCGA-44-2661    TCGA-44-2665    TCGA-44-3398    TCGA-44-3918 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
   TCGA-44-3919    TCGA-44-4112    TCGA-55-1592    TCGA-55-1595    TCGA-64-1676 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
   TCGA-64-1677    TCGA-67-3771    TCGA-67-3772    TCGA-67-3773 
"FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" "FN1 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FN1 MUTATED        2      6      4      8
  FN1 WILD-TYPE     63    204     68    123
D391V3, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           2            63
  CLUS_2           6           204
  CLUS_3           4            68
  CLUS_4           8           123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      8      7
  FN1 WILD-TYPE    126    130    154
D391V4, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           5           126
  CLUS_2           8           130
  CLUS_3           7           154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      1      2
  FN1 WILD-TYPE     41     70     61
D391V5, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           1            41
  CLUS_2           1            70
  CLUS_3           2            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
  FN1 MUTATED        0      0      1      3      0
  FN1 WILD-TYPE     39     32     42     27     32
D391V6, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           0            39
  CLUS_2           0            32
  CLUS_3           1            42
  CLUS_4           3            27
  CLUS_5           0            32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  FN1 MUTATED        7     10      4
  FN1 WILD-TYPE    143    175    139
D391V7, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           7           143
  CLUS_2          10           175
  CLUS_3           4           139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FN1 MUTATED        3      5      8      0      0      3      2
  FN1 WILD-TYPE     69    104     82     44     49     43     66
D391V8, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           3            69
  CLUS_2           5           104
  CLUS_3           8            82
  CLUS_4           0            44
  CLUS_5           0            49
  CLUS_6           3            43
  CLUS_7           2            66
[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        7     10      4
  FN1 WILD-TYPE    168    201     86
D391V9, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           7           168
  CLUS_2          10           201
  CLUS_3           4            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
  FN1 MUTATED        3      7      4      7
  FN1 WILD-TYPE     67    179    127     82
D391V10, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           3            67
  CLUS_2           7           179
  CLUS_3           4           127
  CLUS_4           7            82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      9      6
  FN1 WILD-TYPE    136    173     83
D391V11, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           5           136
  CLUS_2           9           173
  CLUS_3           6            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
  FN1 MUTATED        3     14      3
  FN1 WILD-TYPE     91    219     82
D391V12, multiclass
        clus
vv       FN1 MUTATED FN1 WILD-TYPE
  CLUS_1           3            91
  CLUS_2          14           219
  CLUS_3           3            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"

Clustering(392) Variable = RUFY2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RUFY2 MUTATED        0      0      0      0
  RUFY2 WILD-TYPE      5      7      5      3
D392V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY2 MUTATED        0      0      0
  RUFY2 WILD-TYPE      7      9      4
D392V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RUFY2 MUTATED        1      1      3      3
  RUFY2 WILD-TYPE     64    209     69    128
D392V3, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             1              64
  CLUS_2             1             209
  CLUS_3             3              69
  CLUS_4             3             128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY2 MUTATED        2      4      1
  RUFY2 WILD-TYPE    129    134    160
D392V4, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             2             129
  CLUS_2             4             134
  CLUS_3             1             160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY2 MUTATED        0      1      1
  RUFY2 WILD-TYPE     42     70     62
D392V5, multiclass
[1] "Remove cluster labels:" "RUFY2 MUTATED"         
clus
  RUFY2 MUTATED RUFY2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6779      TCGA-44-7659 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-7670      TCGA-44-7671      TCGA-44-7672      TCGA-49-4486 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-4487      TCGA-49-4488      TCGA-49-4494      TCGA-49-4501 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-4505      TCGA-49-4506      TCGA-49-4507      TCGA-49-4510 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-4512      TCGA-49-4514      TCGA-49-6742      TCGA-49-6744 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RUFY2 MUTATED        0      0      1      1      0
  RUFY2 WILD-TYPE     39     32     42     29     32
D392V6, multiclass
[1] "Remove cluster labels:" "RUFY2 MUTATED"         
clus
  RUFY2 MUTATED RUFY2 WILD-TYPE 
              2             174 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6779      TCGA-44-7659 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-44-7670      TCGA-44-7671      TCGA-44-7672      TCGA-49-4486 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-4487      TCGA-49-4488      TCGA-49-4494      TCGA-49-4501 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-4505      TCGA-49-4506      TCGA-49-4507      TCGA-49-4510 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-4512      TCGA-49-4514      TCGA-49-6742      TCGA-49-6744 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5068      TCGA-50-5072 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5936 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6595      TCGA-50-6597      TCGA-50-6673 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-50-7109      TCGA-53-7626      TCGA-53-7813      TCGA-55-1592 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-6543      TCGA-55-6712      TCGA-55-6970      TCGA-55-6971 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6981      TCGA-55-6982 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-7573      TCGA-55-7574      TCGA-55-7728      TCGA-55-7815 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-55-7911      TCGA-64-1676      TCGA-64-1677      TCGA-64-1679 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-64-1681      TCGA-64-5774      TCGA-64-5778      TCGA-64-5781 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-67-3771      TCGA-67-6215      TCGA-67-6216      TCGA-67-6217 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-69-7760      TCGA-69-7761      TCGA-69-7763      TCGA-69-7764 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-69-7765      TCGA-71-6725      TCGA-73-4658      TCGA-73-4659 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-6203      TCGA-75-6205      TCGA-75-6207 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-75-6211      TCGA-75-6212      TCGA-75-6214      TCGA-75-7027 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7147      TCGA-78-7148      TCGA-78-7149      TCGA-78-7150 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7152      TCGA-78-7153      TCGA-78-7154      TCGA-78-7155 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7156      TCGA-78-7158      TCGA-78-7159      TCGA-78-7160 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7161      TCGA-78-7162      TCGA-78-7163      TCGA-78-7166 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-80-5607      TCGA-80-5608      TCGA-86-6562      TCGA-86-6851 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-86-7713      TCGA-91-6828      TCGA-91-6829      TCGA-91-6835 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6849      TCGA-91-7771 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-93-7348      TCGA-95-7039      TCGA-95-7043      TCGA-95-7567 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-97-7546      TCGA-97-7552 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
     TCGA-97-7941      TCGA-99-7458 
"RUFY2 WILD-TYPE" "RUFY2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY2 MUTATED        1      5      2
  RUFY2 WILD-TYPE    149    180    141
D392V7, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             1             149
  CLUS_2             5             180
  CLUS_3             2             141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RUFY2 MUTATED        0      2      2      1      0      3      0
  RUFY2 WILD-TYPE     72    107     88     43     49     43     68
D392V8, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             2              88
  CLUS_4             1              43
  CLUS_5             0              49
  CLUS_6             3              43
  CLUS_7             0              68
[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
  RUFY2 MUTATED        2      3      2
  RUFY2 WILD-TYPE    173    208     88
D392V9, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             2             173
  CLUS_2             3             208
  CLUS_3             2              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
  RUFY2 MUTATED        1      3      1      2
  RUFY2 WILD-TYPE     69    183    130     87
D392V10, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3             183
  CLUS_3             1             130
  CLUS_4             2              87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RUFY2 MUTATED        2      2      3
  RUFY2 WILD-TYPE    139    180     86
D392V11, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             2             139
  CLUS_2             2             180
  CLUS_3             3              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
  RUFY2 MUTATED        1      5      1
  RUFY2 WILD-TYPE     93    228     84
D392V12, multiclass
        clus
vv       RUFY2 MUTATED RUFY2 WILD-TYPE
  CLUS_1             1              93
  CLUS_2             5             228
  CLUS_3             1              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"

Clustering(393) Variable = YIPF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  YIPF1 MUTATED        0      0      0      0
  YIPF1 WILD-TYPE      5      7      5      3
D393V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YIPF1 MUTATED        0      0      0
  YIPF1 WILD-TYPE      7      9      4
D393V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  YIPF1 MUTATED        0      0      1      2
  YIPF1 WILD-TYPE     65    210     71    129
D393V3, multiclass
        clus
vv       YIPF1 MUTATED YIPF1 WILD-TYPE
  CLUS_1             0              65
  CLUS_2             0             210
  CLUS_3             1              71
  CLUS_4             2             129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YIPF1 MUTATED        0      1      1
  YIPF1 WILD-TYPE    131    137    160
D393V4, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              2             428 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-2656 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-2665      TCGA-44-3918      TCGA-44-4112      TCGA-44-5643 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47A      TCGA-44-A47B 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-A47F      TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4487      TCGA-49-4488      TCGA-49-4490      TCGA-49-4512 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4514      TCGA-49-6742      TCGA-49-6743      TCGA-49-6744 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6745      TCGA-49-6761      TCGA-49-6767      TCGA-50-5044 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5045      TCGA-50-5049      TCGA-50-5051      TCGA-50-5055 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5066      TCGA-50-5068      TCGA-50-5072      TCGA-50-5930 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5931      TCGA-50-5932      TCGA-50-5933      TCGA-50-5935 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5936      TCGA-50-5939      TCGA-50-5941      TCGA-50-5942 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5944      TCGA-50-5946      TCGA-50-6590      TCGA-50-6591 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6592      TCGA-50-6593      TCGA-50-6594      TCGA-50-6595 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-50-8457 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-8459      TCGA-50-8460      TCGA-53-7624      TCGA-53-7626 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-53-7813      TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6642      TCGA-55-6712      TCGA-55-6968      TCGA-55-6969 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6972      TCGA-55-6975 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6978      TCGA-55-6979      TCGA-55-6980      TCGA-55-6981 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6982      TCGA-55-6983      TCGA-55-6984      TCGA-55-6985 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6986      TCGA-55-6987      TCGA-55-7227      TCGA-55-7281 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7283      TCGA-55-7284      TCGA-55-7570      TCGA-55-7573 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7574      TCGA-55-7576      TCGA-55-7724      TCGA-55-7725 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7726      TCGA-55-7727      TCGA-55-7728      TCGA-55-7815 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7816      TCGA-55-7903      TCGA-55-7907      TCGA-55-7910 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7911      TCGA-55-7913      TCGA-55-7914      TCGA-55-7995 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8085      TCGA-55-8087      TCGA-55-8089      TCGA-55-8090 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8091      TCGA-55-8092      TCGA-55-8094      TCGA-55-8096 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8097      TCGA-55-8203      TCGA-55-8204      TCGA-55-8205 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8206      TCGA-55-8207      TCGA-55-8208      TCGA-55-8299 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8301      TCGA-55-8302      TCGA-55-8505      TCGA-55-8506 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8507      TCGA-55-8508      TCGA-55-8510      TCGA-55-8511 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8512      TCGA-55-8513      TCGA-55-8514      TCGA-55-8614 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8615      TCGA-55-8616      TCGA-55-8619      TCGA-55-8620 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8621      TCGA-55-A48X      TCGA-55-A48Y      TCGA-55-A48Z 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A490      TCGA-55-A491      TCGA-55-A492      TCGA-55-A493 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A494      TCGA-55-A4DF      TCGA-55-A4DG      TCGA-62-8394 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-8395      TCGA-62-8397      TCGA-62-8398      TCGA-62-8399 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-8402      TCGA-62-A46O      TCGA-62-A46P      TCGA-62-A46R 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46S      TCGA-62-A46U      TCGA-62-A46V      TCGA-62-A46Y 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A470      TCGA-62-A471      TCGA-62-A472      TCGA-64-1681 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5774      TCGA-64-5775      TCGA-64-5778      TCGA-64-5779 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5781      TCGA-64-5815      TCGA-67-4679      TCGA-67-6215 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-6216      TCGA-67-6217      TCGA-69-7760      TCGA-69-7761 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7763      TCGA-69-7764      TCGA-69-7765      TCGA-69-7973 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7974      TCGA-69-7978      TCGA-69-7979      TCGA-69-7980 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-8253      TCGA-69-8254      TCGA-69-8255      TCGA-69-A59K 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-71-6725      TCGA-71-8520      TCGA-73-4658      TCGA-73-4676 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-7498      TCGA-73-7499      TCGA-75-5122      TCGA-75-5125 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5126      TCGA-75-5146      TCGA-75-5147      TCGA-75-6203 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6205      TCGA-75-6206      TCGA-75-6207      TCGA-75-6211 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6212      TCGA-75-6214      TCGA-75-7025      TCGA-75-7027 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-7030      TCGA-75-7031      TCGA-78-7143      TCGA-78-7145 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7146      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7220      TCGA-78-7535 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7536      TCGA-78-7537      TCGA-78-7539      TCGA-78-7540 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7542      TCGA-78-7633      TCGA-78-8640      TCGA-78-8648 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-8655      TCGA-78-8660      TCGA-78-8662      TCGA-80-5607 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-80-5608      TCGA-80-5611      TCGA-83-5908      TCGA-86-6562 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7701      TCGA-86-7711      TCGA-86-7713 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7714      TCGA-86-7953      TCGA-86-7954      TCGA-86-7955 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8054      TCGA-86-8055      TCGA-86-8056      TCGA-86-8073 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8074      TCGA-86-8075      TCGA-86-8076      TCGA-86-8278 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8279      TCGA-86-8280      TCGA-86-8281      TCGA-86-8358 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8359      TCGA-86-8585      TCGA-86-8668      TCGA-86-8669 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8671      TCGA-86-8672      TCGA-86-8673      TCGA-86-8674 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-A456      TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6828      TCGA-91-6829      TCGA-91-6830      TCGA-91-6831 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6836      TCGA-91-6840      TCGA-91-6847 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6848      TCGA-91-6849      TCGA-91-7771      TCGA-91-8496 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-8497      TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-7347      TCGA-93-7348      TCGA-93-8067      TCGA-93-A4JN 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-A4JO      TCGA-93-A4JP      TCGA-93-A4JQ      TCGA-95-7039 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7043      TCGA-95-7562      TCGA-95-7567      TCGA-95-7944 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7947      TCGA-95-7948      TCGA-95-8039      TCGA-95-8494 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-A4VK      TCGA-95-A4VN      TCGA-95-A4VP      TCGA-97-7546 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7547      TCGA-97-7552      TCGA-97-7553      TCGA-97-7554 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7937      TCGA-97-7938      TCGA-97-7941      TCGA-97-8171 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8172      TCGA-97-8174      TCGA-97-8175      TCGA-97-8176 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8177      TCGA-97-8179      TCGA-97-8547      TCGA-97-8552 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4LX      TCGA-97-A4M0      TCGA-97-A4M1      TCGA-97-A4M2 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M3      TCGA-97-A4M5      TCGA-97-A4M6      TCGA-97-A4M7 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-99-7458      TCGA-99-8025      TCGA-99-8028      TCGA-99-8032 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-99-8033      TCGA-J2-8192      TCGA-J2-8194      TCGA-J2-A4AD 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-J2-A4AE      TCGA-J2-A4AG      TCGA-L4-A4E5      TCGA-L4-A4E6 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-L9-A443      TCGA-L9-A444      TCGA-MN-A4N1      TCGA-MN-A4N4 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MN-A4N5      TCGA-MP-A4SV      TCGA-MP-A4SW      TCGA-MP-A4SY 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4T2      TCGA-MP-A4T4      TCGA-MP-A4T6      TCGA-MP-A4T7 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4T8      TCGA-MP-A4T9      TCGA-MP-A4TA      TCGA-MP-A4TC 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TD      TCGA-MP-A4TE      TCGA-MP-A4TF      TCGA-MP-A4TH 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TI      TCGA-MP-A4TK      TCGA-MP-A5C7      TCGA-NJ-A4YF 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A4YG      TCGA-NJ-A4YI      TCGA-NJ-A4YP      TCGA-NJ-A4YQ 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A55A      TCGA-NJ-A55O      TCGA-NJ-A55R      TCGA-O1-A52J 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YIPF1 MUTATED        0      1      0
  YIPF1 WILD-TYPE     42     70     63
D393V5, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  YIPF1 MUTATED        0      0      1      0      0
  YIPF1 WILD-TYPE     39     32     42     30     32
D393V6, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              1             175 
     TCGA-05-4249      TCGA-05-4384      TCGA-05-4396      TCGA-05-4398 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4402      TCGA-05-4405      TCGA-05-4410      TCGA-05-4417 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4418      TCGA-05-4420      TCGA-05-4422      TCGA-05-4426 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-5420      TCGA-05-5423      TCGA-05-5429 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5715      TCGA-38-4626      TCGA-38-4627      TCGA-38-6178 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3919      TCGA-44-4112      TCGA-44-5645 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6145      TCGA-44-6146      TCGA-44-6147      TCGA-44-6774 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6779 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7659      TCGA-44-7662      TCGA-44-7670      TCGA-44-7671 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7672      TCGA-49-4486      TCGA-49-4487      TCGA-49-4488 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4494      TCGA-49-4501      TCGA-49-4505      TCGA-49-4506 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4507      TCGA-49-4510      TCGA-49-4512      TCGA-49-4514 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6744      TCGA-49-6745      TCGA-49-6761 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6767      TCGA-50-5044      TCGA-50-5049      TCGA-50-5051 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5931      TCGA-50-5932 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5933      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-6593      TCGA-50-6595 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6597      TCGA-50-6673      TCGA-50-7109      TCGA-53-7626 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-53-7813      TCGA-55-1592      TCGA-55-6543      TCGA-55-6712 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6970      TCGA-55-6971      TCGA-55-6978      TCGA-55-6979 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6981      TCGA-55-6982      TCGA-55-7573      TCGA-55-7574 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7911      TCGA-64-1676 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-1677      TCGA-64-1681      TCGA-64-5774      TCGA-64-5778 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5781      TCGA-67-3771      TCGA-67-6215      TCGA-67-6216 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-71-6725      TCGA-73-4658 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-4659      TCGA-73-4675      TCGA-73-4676      TCGA-73-7498 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-7499      TCGA-75-5122      TCGA-75-6203      TCGA-75-6205 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-7027      TCGA-75-7030      TCGA-75-7031      TCGA-78-7143 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7145      TCGA-78-7147      TCGA-78-7148      TCGA-78-7149 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7150      TCGA-78-7152      TCGA-78-7153      TCGA-78-7154 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7155      TCGA-78-7156      TCGA-78-7158      TCGA-78-7159 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7162      TCGA-78-7163 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7166      TCGA-78-7167      TCGA-78-7535      TCGA-78-7536 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7633      TCGA-80-5607      TCGA-80-5608      TCGA-86-6562 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-6851      TCGA-86-7713      TCGA-91-6828      TCGA-91-6829 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6835      TCGA-91-6840      TCGA-91-6847      TCGA-91-6849 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-7771      TCGA-93-7348      TCGA-95-7039      TCGA-95-7043 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7947      TCGA-95-7948      TCGA-97-7546 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7552      TCGA-97-7553      TCGA-97-7554      TCGA-97-7937 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7938      TCGA-97-7941      TCGA-99-7458 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YIPF1 MUTATED        0      3      0
  YIPF1 WILD-TYPE    150    182    143
D393V7, multiclass
        clus
vv       YIPF1 MUTATED YIPF1 WILD-TYPE
  CLUS_1             0             150
  CLUS_2             3             182
  CLUS_3             0             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  YIPF1 MUTATED        0      2      0      0      0      1      0
  YIPF1 WILD-TYPE     72    107     90     44     49     45     68
D393V8, multiclass
        clus
vv       YIPF1 MUTATED YIPF1 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             2             107
  CLUS_3             0              90
  CLUS_4             0              44
  CLUS_5             0              49
  CLUS_6             1              45
  CLUS_7             0              68
[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
  YIPF1 MUTATED        0      1      1
  YIPF1 WILD-TYPE    175    210     89
D393V9, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              2             474 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-05-4382 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4384      TCGA-05-4389      TCGA-05-4390      TCGA-05-4395 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4396      TCGA-05-4397      TCGA-05-4398      TCGA-05-4402 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4403      TCGA-05-4405      TCGA-05-4410      TCGA-05-4415 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4417      TCGA-05-4418      TCGA-05-4420      TCGA-05-4422 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4424      TCGA-05-4425      TCGA-05-4426      TCGA-05-4427 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4430      TCGA-05-4432      TCGA-05-4433      TCGA-05-4434 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5420      TCGA-05-5423      TCGA-05-5425      TCGA-05-5428 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5429      TCGA-05-5715      TCGA-35-4122      TCGA-35-4123 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-35-5375      TCGA-38-4625      TCGA-38-4626      TCGA-38-4627 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-38-4628      TCGA-38-4629      TCGA-38-4630      TCGA-38-4631 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-38-4632      TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-2656      TCGA-44-2657      TCGA-44-2661      TCGA-44-2665 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-3396      TCGA-44-3398      TCGA-44-3918      TCGA-44-3919 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-4112      TCGA-44-5643      TCGA-44-5644      TCGA-44-5645 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6144      TCGA-44-6145      TCGA-44-6146      TCGA-44-6147 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6148      TCGA-44-6774      TCGA-44-6775      TCGA-44-6776 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6777      TCGA-44-6778      TCGA-44-6779      TCGA-44-7659 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7660      TCGA-44-7661      TCGA-44-7662      TCGA-44-7667 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7669      TCGA-44-7670      TCGA-44-7671      TCGA-44-7672 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-8117      TCGA-44-8119      TCGA-44-8120      TCGA-44-A479 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-A47A      TCGA-44-A47B      TCGA-44-A47F      TCGA-44-A47G 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4486      TCGA-49-4487 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4494      TCGA-49-4501 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4505      TCGA-49-4506      TCGA-49-4507      TCGA-49-4510 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4512      TCGA-49-4514      TCGA-49-6742      TCGA-49-6743 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6744      TCGA-49-6745      TCGA-49-6761      TCGA-49-6767 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5044      TCGA-50-5045      TCGA-50-5049      TCGA-50-5051 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5055      TCGA-50-5066      TCGA-50-5068      TCGA-50-5072 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5930      TCGA-50-5931      TCGA-50-5932      TCGA-50-5933 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5935      TCGA-50-5936      TCGA-50-5939      TCGA-50-5941 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5942      TCGA-50-5944      TCGA-50-5946      TCGA-50-6590 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6591      TCGA-50-6592      TCGA-50-6593      TCGA-50-6594 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6595      TCGA-50-6597      TCGA-50-6673      TCGA-50-7109 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-8457      TCGA-50-8459      TCGA-50-8460      TCGA-53-7624 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-53-7626      TCGA-53-7813      TCGA-53-A4EZ      TCGA-55-1592 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-1595      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7725      TCGA-55-7726      TCGA-55-7727 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7728      TCGA-55-7815      TCGA-55-7816      TCGA-55-7903 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7907      TCGA-55-7910      TCGA-55-7911      TCGA-55-7913 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7914      TCGA-55-7995      TCGA-55-8085      TCGA-55-8087 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8089      TCGA-55-8090      TCGA-55-8091      TCGA-55-8092 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8094      TCGA-55-8096      TCGA-55-8097      TCGA-55-8203 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8204      TCGA-55-8205      TCGA-55-8206      TCGA-55-8207 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8208      TCGA-55-8299      TCGA-55-8301      TCGA-55-8302 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8505      TCGA-55-8506      TCGA-55-8507      TCGA-55-8508 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8510      TCGA-55-8511      TCGA-55-8512      TCGA-55-8513 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8514      TCGA-55-8614      TCGA-55-8615      TCGA-55-8616 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8619      TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A492      TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395      TCGA-62-8397 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-8398      TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A472      TCGA-64-1676      TCGA-64-1677      TCGA-64-1681 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5774      TCGA-64-5775      TCGA-64-5778      TCGA-64-5779 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5781      TCGA-64-5815      TCGA-67-3771      TCGA-67-3772 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-3773      TCGA-67-4679      TCGA-67-6215      TCGA-67-6216 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-6217      TCGA-69-7760      TCGA-69-7761      TCGA-69-7763 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7764      TCGA-69-7765      TCGA-69-7973      TCGA-69-7974 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7978      TCGA-69-7979      TCGA-69-7980      TCGA-69-8253 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-8254      TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-71-8520      TCGA-73-4658      TCGA-73-4659      TCGA-73-4662 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-4675      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7153      TCGA-78-7154      TCGA-78-7155      TCGA-78-7156 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7158      TCGA-78-7159      TCGA-78-7160      TCGA-78-7161 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7162      TCGA-78-7163      TCGA-78-7166      TCGA-78-7167 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7220      TCGA-78-7535      TCGA-78-7536      TCGA-78-7537 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7539      TCGA-78-7540      TCGA-78-7542      TCGA-78-7633 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-8640      TCGA-78-8648      TCGA-78-8655      TCGA-78-8660 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-8662      TCGA-80-5607      TCGA-80-5608      TCGA-80-5611 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-83-5908      TCGA-86-6562      TCGA-86-6851      TCGA-86-7701 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7711      TCGA-86-7713      TCGA-86-7714      TCGA-86-7953 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7954      TCGA-86-7955      TCGA-86-8054      TCGA-86-8055 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8056      TCGA-86-8073      TCGA-86-8074      TCGA-86-8075 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8076      TCGA-86-8278      TCGA-86-8279      TCGA-86-8280 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8281      TCGA-86-8358      TCGA-86-8359      TCGA-86-8585 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8668      TCGA-86-8669      TCGA-86-8671      TCGA-86-8672 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8673      TCGA-86-8674      TCGA-86-A456      TCGA-86-A4JF 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828      TCGA-91-6829 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6830      TCGA-91-6831      TCGA-91-6835      TCGA-91-6836 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6840      TCGA-91-6847      TCGA-91-6848      TCGA-91-6849 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-7771      TCGA-91-8496      TCGA-91-8497      TCGA-91-8499 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347      TCGA-93-7348 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-8067      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  YIPF1 MUTATED        0      0      0      2
  YIPF1 WILD-TYPE     70    186    131     87
D393V10, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              2             474 
     TCGA-05-4244      TCGA-05-4249      TCGA-05-4250      TCGA-05-4382 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4384      TCGA-05-4389      TCGA-05-4390      TCGA-05-4395 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4396      TCGA-05-4397      TCGA-05-4398      TCGA-05-4402 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4403      TCGA-05-4405      TCGA-05-4410      TCGA-05-4415 
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     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YIPF1 MUTATED        0      1      1
  YIPF1 WILD-TYPE    141    181     88
D393V11, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5930      TCGA-50-5931 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5932      TCGA-50-5933      TCGA-50-5935      TCGA-50-5936 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5946      TCGA-50-6590      TCGA-50-6591      TCGA-50-6592 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6594      TCGA-50-6595      TCGA-50-6597 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-50-8457      TCGA-50-8459 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-8460      TCGA-53-7624      TCGA-53-7626      TCGA-53-7813 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7726      TCGA-55-7727      TCGA-55-7728 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7816      TCGA-55-7903      TCGA-55-7907 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7910      TCGA-55-7911      TCGA-55-7913      TCGA-55-7914 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8085      TCGA-55-8087      TCGA-55-8089      TCGA-55-8090 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8091      TCGA-55-8092      TCGA-55-8094      TCGA-55-8096 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8203      TCGA-55-8204      TCGA-55-8205      TCGA-55-8206 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8208      TCGA-55-8299      TCGA-55-8301      TCGA-55-8302 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8505      TCGA-55-8506      TCGA-55-8507      TCGA-55-8508 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8510      TCGA-55-8511      TCGA-55-8512      TCGA-55-8513 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8514      TCGA-55-8614      TCGA-55-8615      TCGA-55-8616 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8619      TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A492      TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395      TCGA-62-8397 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-8398      TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A472      TCGA-64-1681      TCGA-64-5774      TCGA-64-5775 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5779      TCGA-64-5781      TCGA-64-5815 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-6215      TCGA-67-6216      TCGA-67-6217      TCGA-69-7760 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7765      TCGA-69-7973      TCGA-69-7974      TCGA-69-7978 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7979      TCGA-69-7980      TCGA-69-8253      TCGA-69-8254 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725      TCGA-71-8520 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7159 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  YIPF1 MUTATED        0      2      0
  YIPF1 WILD-TYPE     94    231     85
D393V12, multiclass
[1] "Remove cluster labels:" "YIPF1 MUTATED"         
clus
  YIPF1 MUTATED YIPF1 WILD-TYPE 
              2             410 
     TCGA-05-4384      TCGA-05-4390      TCGA-05-4396      TCGA-05-4405 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4410      TCGA-05-4415      TCGA-05-4417      TCGA-05-4424 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-4425      TCGA-05-4427      TCGA-05-4433      TCGA-05-5420 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5423      TCGA-05-5425      TCGA-05-5428      TCGA-05-5429 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-05-5715      TCGA-35-5375      TCGA-38-4631      TCGA-38-4632 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-38-6178      TCGA-38-7271      TCGA-38-A44F      TCGA-44-5643 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-5644      TCGA-44-5645      TCGA-44-6144      TCGA-44-6145 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6146      TCGA-44-6147      TCGA-44-6148      TCGA-44-6774 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6775      TCGA-44-6776      TCGA-44-6777      TCGA-44-6778 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-6779      TCGA-44-7659      TCGA-44-7660      TCGA-44-7661 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7662      TCGA-44-7667      TCGA-44-7669      TCGA-44-7670 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-7671      TCGA-44-7672      TCGA-44-8117      TCGA-44-8119 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-8120      TCGA-44-A479      TCGA-44-A47B      TCGA-44-A47F 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-44-A47G      TCGA-44-A4SS      TCGA-44-A4SU      TCGA-49-4487 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-4488      TCGA-49-4490      TCGA-49-4512      TCGA-49-4514 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6742      TCGA-49-6743      TCGA-49-6744      TCGA-49-6745 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-49-6761      TCGA-49-6767      TCGA-50-5044      TCGA-50-5045 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5049      TCGA-50-5051      TCGA-50-5055      TCGA-50-5066 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5068      TCGA-50-5072      TCGA-50-5930      TCGA-50-5931 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5932      TCGA-50-5933      TCGA-50-5935      TCGA-50-5936 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5939      TCGA-50-5941      TCGA-50-5942      TCGA-50-5944 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-5946      TCGA-50-6590      TCGA-50-6591      TCGA-50-6592 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6593      TCGA-50-6594      TCGA-50-6595      TCGA-50-6597 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-6673      TCGA-50-7109      TCGA-50-8457      TCGA-50-8459 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-50-8460      TCGA-53-7624      TCGA-53-7626      TCGA-53-7813 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-53-A4EZ      TCGA-55-5899      TCGA-55-6543      TCGA-55-6642 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6712      TCGA-55-6968      TCGA-55-6969      TCGA-55-6970 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6971      TCGA-55-6972      TCGA-55-6978      TCGA-55-6979 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6980      TCGA-55-6981      TCGA-55-6982      TCGA-55-6983 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-6984      TCGA-55-6985      TCGA-55-6986      TCGA-55-6987 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7227      TCGA-55-7281      TCGA-55-7283      TCGA-55-7284 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7570      TCGA-55-7573      TCGA-55-7574      TCGA-55-7576 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7724      TCGA-55-7726      TCGA-55-7727      TCGA-55-7728 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7815      TCGA-55-7816      TCGA-55-7903      TCGA-55-7907 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-7910      TCGA-55-7911      TCGA-55-7913      TCGA-55-7914 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8085      TCGA-55-8087      TCGA-55-8089      TCGA-55-8090 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8091      TCGA-55-8092      TCGA-55-8094      TCGA-55-8096 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8203      TCGA-55-8204      TCGA-55-8205      TCGA-55-8206 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8208      TCGA-55-8299      TCGA-55-8301      TCGA-55-8302 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8505      TCGA-55-8506      TCGA-55-8507      TCGA-55-8508 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8510      TCGA-55-8511      TCGA-55-8512      TCGA-55-8513 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8514      TCGA-55-8614      TCGA-55-8615      TCGA-55-8616 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-8619      TCGA-55-8620      TCGA-55-8621      TCGA-55-A48X 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A48Y      TCGA-55-A48Z      TCGA-55-A490      TCGA-55-A491 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A492      TCGA-55-A493      TCGA-55-A494      TCGA-55-A4DF 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-55-A4DG      TCGA-62-8394      TCGA-62-8395      TCGA-62-8397 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-8398      TCGA-62-8399      TCGA-62-8402      TCGA-62-A46O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46P      TCGA-62-A46R      TCGA-62-A46S      TCGA-62-A46U 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A46V      TCGA-62-A46Y      TCGA-62-A470      TCGA-62-A471 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-62-A472      TCGA-64-1681      TCGA-64-5774      TCGA-64-5775 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-64-5778      TCGA-64-5779      TCGA-64-5781      TCGA-64-5815 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-67-6215      TCGA-67-6216      TCGA-67-6217      TCGA-69-7760 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7765      TCGA-69-7973      TCGA-69-7974      TCGA-69-7978 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-7979      TCGA-69-7980      TCGA-69-8253      TCGA-69-8254 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-69-8255      TCGA-69-A59K      TCGA-71-6725      TCGA-71-8520 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-73-4658      TCGA-73-4676      TCGA-73-7498      TCGA-73-7499 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5122      TCGA-75-5125      TCGA-75-5126      TCGA-75-5146 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-5147      TCGA-75-6203      TCGA-75-6205      TCGA-75-6206 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-6207      TCGA-75-6211      TCGA-75-6212      TCGA-75-6214 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-75-7025      TCGA-75-7027      TCGA-75-7030      TCGA-75-7031 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7143      TCGA-78-7145      TCGA-78-7146      TCGA-78-7147 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7148      TCGA-78-7149      TCGA-78-7150      TCGA-78-7152 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7154      TCGA-78-7155      TCGA-78-7156      TCGA-78-7159 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7160      TCGA-78-7161      TCGA-78-7163      TCGA-78-7166 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7167      TCGA-78-7220      TCGA-78-7535      TCGA-78-7536 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7537      TCGA-78-7539      TCGA-78-7540      TCGA-78-7542 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-7633      TCGA-78-8640      TCGA-78-8648      TCGA-78-8655 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-78-8660      TCGA-78-8662      TCGA-80-5607      TCGA-80-5608 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-80-5611      TCGA-83-5908      TCGA-86-6562      TCGA-86-6851 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7701      TCGA-86-7711      TCGA-86-7713      TCGA-86-7714 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-7953      TCGA-86-7954      TCGA-86-7955      TCGA-86-8054 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8055      TCGA-86-8056      TCGA-86-8073      TCGA-86-8074 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8075      TCGA-86-8076      TCGA-86-8278      TCGA-86-8279 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8280      TCGA-86-8281      TCGA-86-8358      TCGA-86-8359 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8585      TCGA-86-8668      TCGA-86-8669      TCGA-86-8671 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-8672      TCGA-86-8673      TCGA-86-8674      TCGA-86-A456 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-86-A4JF      TCGA-86-A4P7      TCGA-86-A4P8      TCGA-91-6828 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6829      TCGA-91-6830      TCGA-91-6831      TCGA-91-6835 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6836      TCGA-91-6840      TCGA-91-6847      TCGA-91-6848 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-6849      TCGA-91-7771      TCGA-91-8496      TCGA-91-8497 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-91-8499      TCGA-91-A4BC      TCGA-91-A4BD      TCGA-93-7347 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-7348      TCGA-93-A4JN      TCGA-93-A4JO      TCGA-93-A4JP 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-93-A4JQ      TCGA-95-7039      TCGA-95-7043      TCGA-95-7562 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-7567      TCGA-95-7944      TCGA-95-7947      TCGA-95-7948 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-8039      TCGA-95-8494      TCGA-95-A4VK      TCGA-95-A4VN 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-95-A4VP      TCGA-97-7546      TCGA-97-7547      TCGA-97-7552 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7553      TCGA-97-7554      TCGA-97-7937      TCGA-97-7938 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-7941      TCGA-97-8171      TCGA-97-8172      TCGA-97-8174 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8175      TCGA-97-8176      TCGA-97-8177      TCGA-97-8179 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-8547      TCGA-97-8552      TCGA-97-A4LX      TCGA-97-A4M0 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M1      TCGA-97-A4M2      TCGA-97-A4M3      TCGA-97-A4M5 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-97-A4M6      TCGA-97-A4M7      TCGA-99-7458      TCGA-99-8025 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-99-8028      TCGA-99-8032      TCGA-99-8033      TCGA-J2-8192 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-J2-8194      TCGA-J2-A4AD      TCGA-J2-A4AE      TCGA-J2-A4AG 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-L4-A4E5      TCGA-L4-A4E6      TCGA-L9-A443      TCGA-L9-A444 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MN-A4N1      TCGA-MN-A4N4      TCGA-MN-A4N5      TCGA-MP-A4SV 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4SW      TCGA-MP-A4SY      TCGA-MP-A4T2      TCGA-MP-A4T4 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4T6      TCGA-MP-A4T7      TCGA-MP-A4T8      TCGA-MP-A4T9 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TA      TCGA-MP-A4TC      TCGA-MP-A4TD      TCGA-MP-A4TE 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A4TF      TCGA-MP-A4TH      TCGA-MP-A4TI      TCGA-MP-A4TK 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-MP-A5C7      TCGA-NJ-A4YF      TCGA-NJ-A4YG      TCGA-NJ-A4YI 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A4YP      TCGA-NJ-A4YQ      TCGA-NJ-A55A      TCGA-NJ-A55O 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
     TCGA-NJ-A55R      TCGA-O1-A52J 
"YIPF1 WILD-TYPE" "YIPF1 WILD-TYPE" 
